Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 91
Found at i:7307408 original size:14 final size:14
Alignment explanation
Indices: 7307371--7307409 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
7307361 TCAATATTAA
*
7307371 ACAAATCAACTTTT
1 ACAAATCAATTTTT
*
7307385 ATAAATCAATTTTT
1 ACAAATCAATTTTT
7307399 ACAAATCAATT
1 ACAAATCAATT
7307410 AAACAAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
ACAAATCAATTTTT
Found at i:7308853 original size:42 final size:42
Alignment explanation
Indices: 7308794--7308886 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
7308784 ATGAATCGGG
** *
7308794 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACATGGGC
1 CTCTTGAACAGTGGGAGGGGA-CTCTTCAACGATGACAGGGGC
* ** *
7308836 CTCTTGAACAGTGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAACAGTGGGAGGGGACTCTTCAACGATGACAGGGGC
7308878 CTCTTGAAC
1 CTCTTGAAC
7308887 GATAGGAGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 39 0.91
43 4 0.09
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (42 bp):
CTCTTGAACAGTGGGAGGGGACTCTTCAACGATGACAGGGGC
Found at i:7308912 original size:42 final size:42
Alignment explanation
Indices: 7308814--7308916 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
7308804 GTGGGAGGGA
* * * *
7308814 CCTCTTCAACGATGACATGGGCCTCTTGAACAGTGGGAGGGG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAACAGTAGGAGAGG
* ** *
7308856 ACTCTTGAGGGATGATAGGGGCCTCTTGAAC-GATAGGAGAGG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAACAG-TAGGAGAGG
*
7308898 CCTCTTGAATGATGACAGG
1 CCTCTTGAACGATGACAGG
7308917 TGAGTCGGGC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.22
Consensus pattern (42 bp):
CCTCTTGAACGATGACAGGGGCCTCTTGAACAGTAGGAGAGG
Found at i:7309446 original size:20 final size:20
Alignment explanation
Indices: 7309421--7309469 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
7309411 CGAAACTTAA
7309421 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCAAAAATGACT
* **
7309441 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCAAAAATGACT
7309461 ATCGCAACG
1 ATCGCAACG
7309470 GGATAATCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCAAAAATGACT
Found at i:7309501 original size:19 final size:20
Alignment explanation
Indices: 7309474--7309512 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7309464 GCAACGGGAT
*
7309474 AATCTCAATGCGAAA-TAAA
1 AATCGCAATGCGAAACTAAA
7309493 AATCGCAATGCGAAACTAAA
1 AATCGCAATGCGAAACTAAA
7309513 TTCGCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (20 bp):
AATCGCAATGCGAAACTAAA
Found at i:7309609 original size:20 final size:20
Alignment explanation
Indices: 7309584--7309649 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
7309574 ACGATTATCC
*
7309584 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
7309604 CGTTGCGATAGTC-ATTTCTG
1 CGTTGCGATAGTCAATTTC-G
* * *
7309624 CATTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
7309644 CGTTGC
1 CGTTGC
7309650 AATTTATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 4 0.10
20 31 0.79
21 4 0.10
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:7311545 original size:20 final size:20
Alignment explanation
Indices: 7311522--7311565 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7311512 GAAACTTAAA
7311522 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
7311542 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
7311562 ATCG
1 ATCG
7311566 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:7311970 original size:22 final size:22
Alignment explanation
Indices: 7311940--7311983 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7311930 AATGGAGATA
*
7311940 GACGGATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
* *
7311962 GACGAATTTTGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
7311984 AACAGATGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.23
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:7312190 original size:20 final size:20
Alignment explanation
Indices: 7312165--7312208 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
7312155 TATCGCATTA
7312165 CGATAGTCAGAATCACGTTG
1 CGATAGTCAGAATCACGTTG
*
7312185 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCACGTTG
7312205 CGAT
1 CGAT
7312209 TATGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (20 bp):
CGATAGTCAGAATCACGTTG
Found at i:7312222 original size:21 final size:21
Alignment explanation
Indices: 7312196--7312272 Score: 154
Period size: 21 Copynumber: 3.7 Consensus size: 21
7312186 GATAGTCAGA
7312196 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
7312217 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
7312238 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
7312259 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
7312273 TACATATTCG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.42
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:7312297 original size:21 final size:20
Alignment explanation
Indices: 7312259--7312311 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
7312249 ATTATGTATT
* *
7312259 ATCGCGTTGCGATTTACATA
1 ATCGCATTGCGATTTACAAA
*
7312279 TTCGCATTGCGATTTTACAAA
1 ATCGCATTGCGA-TTTACAAA
*
7312300 ATCGCTTTGCGA
1 ATCGCATTGCGA
7312312 ATCTGGAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATTTACAAA
Found at i:7315241 original size:59 final size:59
Alignment explanation
Indices: 7315168--7315327 Score: 214
Period size: 59 Copynumber: 2.7 Consensus size: 59
7315158 CTAAGTGTGC
* *** * *
7315168 AAAATGTTAAGAAATTCATACTAGGTGTATGAATTTTTGTA-TGAGGCACTTTGTGAGCT
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGA-ACACTTTGAGAGCT
* *
7315227 AAAATGTTAGGAAATTCATACTAAGTGTATGAATTTCCATATTGAACACTTTGAGTGCT
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGAACACTTTGAGAGCT
* *
7315286 AAAATGTTAAGAGATTCATACTAAATGTATGAATTTCCATAT
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATAT
7315328 GGGAAATGTG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
59 86 0.97
60 3 0.03
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (59 bp):
AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGAACACTTTGAGAGCT
Found at i:7315810 original size:46 final size:46
Alignment explanation
Indices: 7315759--7316350 Score: 880
Period size: 46 Copynumber: 12.9 Consensus size: 46
7315749 TAATGGTGTA
* *
7315759 TAAAATGCGTGAACCGATGCATTAAGGCATGAAAGGATGCCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
*
7315805 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCAT-AAC
* *
7315852 T-AAATGCATGAACGGATGCATTAAGGTATGAAAGGATGACATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
** *
7315897 TAAAATGCATGAAATGATGCATTAAGGCATGAAATGATGCCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
* * **
7315943 TAAAACGCATTAACAAATGCATTAAGGCATGAAAGGATGCCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
** * * *
7315989 TAAAATGCATGAAAAGATGGATTAAGGCATTAAAGGATGTCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
* * * *
7316035 TAAAATTCATAAACGGATGCATTAAGGTATGAAAGGATTCCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
* *
7316081 TAAAATGCATGAACGGATGCATTAAGACATAAAAGGATGCCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
* * *
7316127 TAAAATGCATGAAAGGATGTATTAAGGCATGAAAGGATTCCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
7316173 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
* *
7316219 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATACCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
* *
7316265 TAAAATGCATGAACGGATGTATTAAGGCATGAAAAGATGCCATAAC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
* *
7316311 TTAAATGCATGAACGGATGTATTAAGGCATGAAAGGATGC
1 TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
7316351 ATTAAGCCAT
Statistics
Matches: 489, Mismatches: 55, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.01
46 481 0.98
47 4 0.01
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
Found at i:7316208 original size:66 final size:66
Alignment explanation
Indices: 7316133--7316410 Score: 199
Period size: 66 Copynumber: 4.1 Consensus size: 66
7316123 TAACTAAAAT
7316133 GCATGAAAGGATGTATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAAAGGATGTATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAA
7316198 G
66 G
* * * * *
7316199 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGA-TGCAT---T--AAGGCATGAAAGGATA
1 GCATGAAAGGATG---T-A-T-TAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGAT-
* *
7316258 CCATAACTAAAAT
59 GCAT---T--AAG
* * * * *
7316271 GCATGAACGGATGTATTAAGGCATGAAAAGATGCCATAACTTAAATGCATGAACGGATGTATTAA
1 GCATGAAAGGATGTATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAA
7316336 G
66 G
* * * * * * * * *
7316337 GCATGAAAGGATGCATTAAGCCATTAAAGGATTCCTTGATTAAAATGCATTAACAGATGTATTAA
1 GCATGAAAGGATGTATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAA
*
7316402 T
66 G
*
7316403 GTATGAAA
1 GCATGAAA
7316411 ATACACCATA
Statistics
Matches: 162, Mismatches: 32, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
66 100 0.62
67 7 0.04
68 3 0.02
69 2 0.01
70 3 0.02
71 7 0.04
72 40 0.25
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (66 bp):
GCATGAAAGGATGTATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAA
G
Found at i:7316282 original size:26 final size:25
Alignment explanation
Indices: 7316120--7316282 Score: 113
Period size: 20 Copynumber: 7.0 Consensus size: 25
7316110 TAAAAGGATG
7316120 CCATAACTAAAATGCATGAAAGGAT
1 CCATAACTAAAATGCATGAAAGGAT
* * *
7316145 --GT-A-T-TAAGGCATGAAAGGATT
1 CCATAACTAAAATGCATGAAAGGA-T
*
7316166 CCATAACTAAAATGCATGAACGGAT
1 CCATAACTAAAATGCATGAAAGGAT
* *
7316191 GCAT---T--AAGGCATGAAAGGAT
1 CCATAACTAAAATGCATGAAAGGAT
7316211 GCCATAACTAAAATGCATGAAAGGAT
1 -CCATAACTAAAATGCATGAAAGGAT
* *
7316237 GCAT---T--AAGGCATGAAAGGAT
1 CCATAACTAAAATGCATGAAAGGAT
*
7316257 ACCATAACTAAAATGCATGAACGGAT
1 -CCATAACTAAAATGCATGAAAGGAT
7316283 GTATTAAGGC
Statistics
Matches: 103, Mismatches: 17, Indels: 35
0.66 0.11 0.23
Matches are distributed among these distances:
20 40 0.39
21 8 0.08
22 3 0.03
23 2 0.02
24 3 0.03
25 8 0.08
26 39 0.38
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (25 bp):
CCATAACTAAAATGCATGAAAGGAT
Found at i:7316422 original size:112 final size:112
Alignment explanation
Indices: 7316225--7316428 Score: 282
Period size: 112 Copynumber: 1.8 Consensus size: 112
7316215 TAACTAAAAT
* *
7316225 GCATGAAAGGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACGGATGTATTAA
1 GCATGAAAGGATGCATTAAGCCATGAAAGGATACCATAACTAAAATGCATGAACAGATGTATTAA
** *
7316290 GGCATGAAAAGATGCCATAACTTAAATGCATGAACGGATGTATTAAG
66 GGCATGAAAAGACACCATAACTGAAATGCATGAACGGATGTATTAAG
* * * * * *
7316337 GCATGAAAGGATGCATTAAGCCATTAAAGGATTCCTTGATTAAAATGCATTAACAGATGTATTAA
1 GCATGAAAGGATGCATTAAGCCATGAAAGGATACCATAACTAAAATGCATGAACAGATGTATTAA
* * *
7316402 TGTATGAAAATACACCATAACTGAAAT
66 GGCATGAAAAGACACCATAACTGAAAT
7316429 TAATGAATAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
112 78 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (112 bp):
GCATGAAAGGATGCATTAAGCCATGAAAGGATACCATAACTAAAATGCATGAACAGATGTATTAA
GGCATGAAAAGACACCATAACTGAAATGCATGAACGGATGTATTAAG
Found at i:7318717 original size:11 final size:11
Alignment explanation
Indices: 7318701--7318726 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7318691 ATATTATTAT
7318701 ATATATAAAAA
1 ATATATAAAAA
7318712 ATATATAAAAA
1 ATATATAAAAA
7318723 ATAT
1 ATAT
7318727 CACTCGGACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATATATAAAAA
Found at i:7337764 original size:113 final size:114
Alignment explanation
Indices: 7337251--7337871 Score: 605
Period size: 114 Copynumber: 5.5 Consensus size: 114
7337241 ATAATGACAG
* * * * * ** * *
7337251 AGAATCTTAACCATTCACGTTATTTCCTTTTTAGTGATATATTGCTTCAAATAAGAACTTATTTC
1 AGAATCTTAACTATTAACGTCATTTTCTTTTCAGTGATATATCACCTCAAATCAGAACTTATTTC
* * * *
7337316 ATATTAAATGAAAAATCTTTTCTATTACAATAATAATTTCAAATTATAA
66 ATATTGAATGAAAAATCTTTTCTAGTACAATAATAATTTCAAATGAAAA
* * * * *
7337365 AGAATC-TAACTATT-CCTGTCATTTTTCTTTTTATTAACATAAT-ACAC-CAAATCAGAACTTA
1 AGAATCTTAACTATTAAC-GTCA-TTTTCTTTTCAGTGATAT-ATCAC-CTCAAATCAGAACTTA
* * * * * * *
7337426 TTTCATGTTGAATGAAAAATATTTT-TCGGTACAATAATGATTTCAAATTATAG
62 TTTCATATTGAATGAAAAATCTTTTCT-AGTACAATAATAATTTCAAATGAAAA
* * * * * * *
7337479 AGAATCTTACCTATTAACATCCTTTTCTTTTCAGTGATCTATCACTTCAAAGCAGAACTTACTTC
1 AGAATCTTAACTATTAACGTCATTTTCTTTTCAGTGATATATCACCTCAAATCAGAACTTATTTC
* * * * *
7337544 ATATTGAATGAAAAATCATTTTCGA-TATAATATTAATTTCAAATGAGAG
66 ATATTGAATGAAAAATC-TTTTCTAGTACAATAATAATTTCAAATGAAAA
* * * * * *
7337593 ATAATCTTAACTATTAACGTCATTTTCTTTT-AATTATTTATCACTTCAAATTAGAACTTATTTC
1 AGAATCTTAACTATTAACGTCATTTTCTTTTCAGTGATATATCACCTCAAATCAGAACTTATTTC
* * *
7337657 ATATTGAATG-AAAATTTTTTCTAGCATAATAATAATTTCAAATGAAAA
66 ATATTGAATGAAAAATCTTTTCTAGTACAATAATAATTTCAAATGAAAA
* * * *
7337705 AGAATCTGAACTATTCACGTCATTTTCTTTTCAGTGATATATCACCTCAAATTAGAACTTATATC
1 AGAATCTTAACTATTAACGTCATTTTCTTTTCAGTGATATATCACCTCAAATCAGAACTTATTTC
* * * *
7337770 AGATTGAATGAAAAAGCTTATCTGGTACAATAATAATTTCAAATGAAAA
66 ATATTGAATGAAAAATCTTTTCTAGTACAATAATAATTTCAAATGAAAA
* *
7337819 ATAATCTTAACTATTAACATCCA--TTCTTTTCAGTGATATATCACCTCAAATCA
1 AGAATCTTAACTATTAACGT-CATTTTCTTTTCAGTGATATATCACCTCAAATCA
7337872 TGTGTTATAT
Statistics
Matches: 418, Mismatches: 74, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
111 6 0.01
112 54 0.13
113 116 0.28
114 224 0.54
115 17 0.04
116 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (114 bp):
AGAATCTTAACTATTAACGTCATTTTCTTTTCAGTGATATATCACCTCAAATCAGAACTTATTTC
ATATTGAATGAAAAATCTTTTCTAGTACAATAATAATTTCAAATGAAAA
Found at i:7337778 original size:226 final size:227
Alignment explanation
Indices: 7337228--7337836 Score: 660
Period size: 226 Copynumber: 2.7 Consensus size: 227
7337218 GTAAGACCAT
* * * * * *
7337228 ATAATAATATTTAATAATGACAGAGAATCTTAACCATTCACGTTATTTCCTTTTTAGTGATATAT
1 ATAATAATATTTCA-AATGAAAGAGAATCTTAACTATTCACGTCATTTTCTTTTCAGTGATATAT
** * *
7337293 TGCTTCAAATAAGAACTTATTTCATATTAAATGAAAAATCTTTTCTATTACAATAATAATTTCAA
65 CACTTCAAATAAGAACTTA-TTCATATTGAATGAAAAATCTTTTCGA-TACAATAATAATTTCAA
* * * * *
7337358 ATTATAAAGAATC-TAACTATT-CCTGTCATTTTTCTTTTTATTAACATAATACACCAAATCAGA
128 ATGAAAAATAATCTTAACTATTAACTGTCATTTTTCTTTTAATTAACATAATACACCAAATCAGA
* * *
7337421 ACTTATTTCATGTTGAATGAAAAATATTTTTCGGT
193 ACTTATTTCATATTGAATGAAAAATATTTTTCAGC
* * * * * * * *
7337456 ACAATAATGATTTCAAATTATAGAGAATCTTACCTATTAACATCCTTTTCTTTTCAGTGATCTAT
1 ATAATAAT-ATTTCAAATGAAAGAGAATCTTAACTATTCACGTCATTTTCTTTTCAGTGATATAT
** * *
7337521 CACTTCAAAGCAGAACTTACTTCATATTGAATGAAAAATCATTTTCGATATAATATTAATTTCAA
65 CACTTCAAATAAGAACTTA-TTCATATTGAATGAAAAATC-TTTTCGATACAATAATAATTTCAA
* * * * *
7337586 ATGAGAGATAATCTTAACTATTAAC-GTCA-TTTTCTTTTAATT-A-TTTAT-CACTTCAAATTA
128 ATGAAAAATAATCTTAACTATTAACTGTCATTTTTCTTTTAATTAACATAATACAC--CAAATCA
7337646 GAACTTATTTCATATTGAATG-AAAAT-TTTTTCTAGC
191 GAACTTATTTCATATTGAATGAAAAATATTTTTC-AGC
* *
7337682 ATAATAATAATTTCAAATGAAAAAGAATCTGAACTATTCACGTCATTTTCTTTTCAGTGATATAT
1 ATAATAAT-ATTTCAAATGAAAGAGAATCTTAACTATTCACGTCATTTTCTTTTCAGTGATATAT
* * * * * *
7337747 CACCTCAAATTAGAACTTATATCAGATTGAATGAAAAAGCTTATCTGGTACAATAATAATTTCAA
65 CACTTCAAATAAGAACTTAT-TCATATTGAATGAAAAATCTTTTC-GATACAATAATAATTTCAA
7337812 ATGAAAAATAATCTTAACTATTAAC
128 ATGAAAAATAATCTTAACTATTAAC
7337837 ATCCATTCTT
Statistics
Matches: 316, Mismatches: 56, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
225 14 0.04
226 135 0.43
227 27 0.09
228 116 0.37
229 23 0.07
230 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (227 bp):
ATAATAATATTTCAAATGAAAGAGAATCTTAACTATTCACGTCATTTTCTTTTCAGTGATATATC
ACTTCAAATAAGAACTTATTCATATTGAATGAAAAATCTTTTCGATACAATAATAATTTCAAATG
AAAAATAATCTTAACTATTAACTGTCATTTTTCTTTTAATTAACATAATACACCAAATCAGAACT
TATTTCATATTGAATGAAAAATATTTTTCAGC
Found at i:7345158 original size:17 final size:18
Alignment explanation
Indices: 7345136--7345170 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
7345126 TTATGACTTT
7345136 ATTTTGAA-AAATTGAAG
1 ATTTTGAATAAATTGAAG
7345153 ATTTTGAATTAAATTGAA
1 ATTTTGAA-TAAATTGAA
7345171 TGGGAGCCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (18 bp):
ATTTTGAATAAATTGAAG
Found at i:7346130 original size:14 final size:16
Alignment explanation
Indices: 7346113--7346153 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7346103 TTAAATAAAA
7346113 ATAAA-TAAAAAG-GC
1 ATAAATTAAAAAGTGC
*
7346127 ATAAATTTAAAAGTGC
1 ATAAATTAAAAAGTGC
7346143 ATAAAGTTAAA
1 ATAAA-TTAAA
7346154 TAACAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 6 0.27
16 7 0.32
17 4 0.18
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (16 bp):
ATAAATTAAAAAGTGC
Found at i:7346346 original size:16 final size:16
Alignment explanation
Indices: 7346321--7346379 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
7346311 ATGTTAGTAA
*
7346321 TTAGTGGTTAGAAATG
1 TTAGTGGTTAGAAAAG
*
7346337 TTAGTTGTTAGAAAAG
1 TTAGTGGTTAGAAAAG
**
7346353 TTAGCAGTTAGAAAAG
1 TTAGTGGTTAGAAAAG
7346369 TTAGTGGTTAG
1 TTAGTGGTTAG
7346380 TGGTTAGCAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.36
Consensus pattern (16 bp):
TTAGTGGTTAGAAAAG
Found at i:7348067 original size:139 final size:139
Alignment explanation
Indices: 7347888--7348430 Score: 585
Period size: 139 Copynumber: 3.9 Consensus size: 139
7347878 TGTTCCTTCC
* * * * * *
7347888 CGTTGAGGAGATCTGGTCGATAGATGACATTGTTCCTACGTGATGAGGACGTCTAGCC-TTTTAT
1 CGTTAAGGAGATCTGGTCGATGGACGACATAGTTCCTACGTGATAAGGACGTCTAGCCATCTT-T
* * **
7347952 AGGGATAATTTAGAGACAACACGATTCCTACATGATGAGGAAGTCTGGTTATCTGATTATGACGC
65 AGGGATAATTTGGAGACAACACGGTTCCTACATGATGAGGAAGTCTGGTTATCTGAGGATGACGC
7348017 TACTCCTACG
130 TACTCCTACG
* * * *
7348027 CGTTAAGGAGATCTGGTCGGTGGACGACATAGTTCCTACGTGATGAGGACATCTAGCCATTTTTA
1 CGTTAAGGAGATCTGGTCGATGGACGACATAGTTCCTACGTGATAAGGACGTCTAGCCATCTTTA
* * * * * *
7348092 GGGATAATTTGGAGACAACATGGTTCCTACGTGATAAGGAAGTATGATTATCTGAGGATGACACT
66 GGGATAATTTGGAGACAACACGGTTCCTACATGATGAGGAAGTCTGGTTATCTGAGGATGACGCT
7348157 ACTCCTACG
131 ACTCCTACG
* * * * * * *
7348166 TGTTGAGGATATCTGATC-AGTGGATGACATTA-TTCCTACGTGATAAGGACGTCTAACCACCTT
1 CGTTAAGGAGATCTGGTCGA-TGGACGACA-TAGTTCCTACGTGATAAGGACGTCTAGCCATCTT
* * * * * *
7348229 TAGGGATACTTTGAAGACAACATGGTTCCTA-AGTGATGAGGAAGTCTAGTTTTCTAAGGATGAC
64 TAGGGATAATTTGGAGACAACACGGTTCCTACA-TGATGAGGAAGTCTGGTTATCTGAGGATGAC
* *
7348293 GCTGCTCCTTCG
128 GCTACTCCTACG
* * * * * *
7348305 TGTTTAA-GAGATCTGGTTGATGGACGACATTGCTCCTACAT-ATAAGGATGTCTAGCCATCTTT
1 CG-TTAAGGAGATCTGGTCGATGGACGACATAGTTCCTACGTGATAAGGACGTCTAGCCATCTTT
* * * * *
7348368 AGGGATAATTTGGAGACAACACGGTTCCTACGTGTTGAGGAAGTCTGATTGTCTAAGGATGAC
65 AGGGATAATTTGGAGACAACACGGTTCCTACATGATGAGGAAGTCTGGTTATCTGAGGATGAC
7348431 ACTTCTCATT
Statistics
Matches: 338, Mismatches: 58, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
138 74 0.22
139 254 0.75
140 10 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (139 bp):
CGTTAAGGAGATCTGGTCGATGGACGACATAGTTCCTACGTGATAAGGACGTCTAGCCATCTTTA
GGGATAATTTGGAGACAACACGGTTCCTACATGATGAGGAAGTCTGGTTATCTGAGGATGACGCT
ACTCCTACG
Found at i:7348318 original size:278 final size:277
Alignment explanation
Indices: 7347910--7348433 Score: 696
Period size: 278 Copynumber: 1.9 Consensus size: 277
7347900 CTGGTCGATA
* * * **
7347910 GATGACATTGTTCCTACGTGATGAGGACGTCTAGCCTTTTATAGGGATAATTTAGAGACAACACG
1 GATGACATTATTCCTACGTGATAAGGACGTCTAACCCCTTATAGGGATAATTTAGAGACAACACG
* * **
7347975 ATTCCTACATGATGAGGAAGTCTGGTTATCTGATTATGACGCTACTCCTACGCGTTAAGGAGATC
66 ATTCCTACATGATGAGGAAGTCTAGTTATCTAAGGATGACGCTACTCCTACGCGTTAAGGAGATC
* * * * *
7348040 TGGTCGGTGGACGACATAGTTCCTACGTGATGAGGACATCTAGCCATTTTTAGGGATAATTTGGA
131 TGGTCGATGGACGACATAGCTCCTACAT-ATAAGGACATCTAGCCATCTTTAGGGATAATTTGGA
* *
7348105 GACAACATGGTTCCTACGTGATAAGGAAGTATGATTATCTGAGGATGACACTACTCCTACGTGTT
195 GACAACACGGTTCCTACGTGATAAGGAAGTATGATTATCTAAGGATGACACTACTCCTACGTGTT
7348170 GAGGATATCTGATCAGTG
260 GAGGATATCTGATCAGTG
*
7348188 GATGACATTATTCCTACGTGATAAGGACGTCTAACCACCTT-TAGGGATACTTT-GAAGACAACA
1 GATGACATTATTCCTACGTGATAAGGACGTCTAACC-CCTTATAGGGATAATTTAG-AGACAACA
* * * * * *
7348251 TGGTTCCTA-AGTGATGAGGAAGTCTAGTTTTCTAAGGATGACGCTGCTCCTTCGTGTTTAA-GA
64 CGATTCCTACA-TGATGAGGAAGTCTAGTTATCTAAGGATGACGCTACTCCTACGCG-TTAAGGA
* * **
7348314 GATCTGGTTGATGGACGACATTGCTCCTACATATAAGGATGTCTAGCCATCTTTAGGGATAATTT
127 GATCTGGTCGATGGACGACATAGCTCCTACATATAAGGACATCTAGCCATCTTTAGGGATAATTT
* * * *
7348379 GGAGACAACACGGTTCCTACGTGTTGAGGAAGTCTGATTGTCTAAGGATGACACT
192 GGAGACAACACGGTTCCTACGTGATAAGGAAGTATGATTATCTAAGGATGACACT
7348434 TCTCATTTAC
Statistics
Matches: 211, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
277 80 0.38
278 125 0.59
279 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (277 bp):
GATGACATTATTCCTACGTGATAAGGACGTCTAACCCCTTATAGGGATAATTTAGAGACAACACG
ATTCCTACATGATGAGGAAGTCTAGTTATCTAAGGATGACGCTACTCCTACGCGTTAAGGAGATC
TGGTCGATGGACGACATAGCTCCTACATATAAGGACATCTAGCCATCTTTAGGGATAATTTGGAG
ACAACACGGTTCCTACGTGATAAGGAAGTATGATTATCTAAGGATGACACTACTCCTACGTGTTG
AGGATATCTGATCAGTG
Found at i:7348741 original size:67 final size:68
Alignment explanation
Indices: 7348648--7348783 Score: 186
Period size: 67 Copynumber: 2.0 Consensus size: 68
7348638 GTTTCAAAAA
* * *
7348648 TTATGTTTCAAGGGAAAATTGTCTCAAGCAAGATGAAACTTTGTTT-GAAGAGAAATATTCTCAA
1 TTATGTTTCAAGAGAAAATTGTCTCAAGCAAGACGAAACTTTGTTTCG-AGAGAAATAATCTCAA
7348712 AGGT
65 AGGT
* ** *
7348716 TTATGTTTCAAGAG-AATTTGTCTCAAGTGAGACGAAGCTTTGTTTCGAGAGAAATAATCTCAAA
1 TTATGTTTCAAGAGAAAATTGTCTCAAGCAAGACGAAACTTTGTTTCGAGAGAAATAATCTCAAA
7348780 GGT
66 GGT
7348783 T
1 T
7348784 ATCAATTTGG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
67 46 0.77
68 14 0.23
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (68 bp):
TTATGTTTCAAGAGAAAATTGTCTCAAGCAAGACGAAACTTTGTTTCGAGAGAAATAATCTCAAA
GGT
Found at i:7357682 original size:21 final size:21
Alignment explanation
Indices: 7357649--7357710 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
7357639 TGTCTTCCAA
* * *
7357649 ATATGAATCATTCATTCAAAT
1 ATATTAATTATTCATTTAAAT
* *
7357670 ATATTAATTATTCTTTTGAAT
1 ATATTAATTATTCATTTAAAT
*
7357691 AAATTAATTATT-ATTTAAAT
1 ATATTAATTATTCATTTAAAT
7357711 TTAAAAAGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (21 bp):
ATATTAATTATTCATTTAAAT
Found at i:7357909 original size:11 final size:11
Alignment explanation
Indices: 7357893--7357937 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
7357883 AATTGAATTT
*
7357893 ACATTTTAAAA
1 ACATTTAAAAA
7357904 ACATTTAAAAA
1 ACATTTAAAAA
7357915 ACATTT----A
1 ACATTTAAAAA
7357922 ACATTTAAAAA
1 ACATTTAAAAA
7357933 ACATT
1 ACATT
7357938 ACATAATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
7 7 0.24
11 22 0.76
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (11 bp):
ACATTTAAAAA
Found at i:7357926 original size:18 final size:18
Alignment explanation
Indices: 7357903--7357937 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7357893 ACATTTTAAA
7357903 AACATTTAAAAAACATTT
1 AACATTTAAAAAACATTT
7357921 AACATTTAAAAAACATT
1 AACATTTAAAAAACATT
7357938 ACATAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
AACATTTAAAAAACATTT
Found at i:7358412 original size:21 final size:21
Alignment explanation
Indices: 7358383--7358455 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
7358373 GGTGTCATAA
7358383 AACCATGCGGGCTAGGAATGT
1 AACCATGCGGGCTAGGAATGT
* * * *
7358404 AACCTTGCGGGATGGGTATGT
1 AACCATGCGGGCTAGGAATGT
* *
7358425 ACCCATGTGGGCTAGGAATGT
1 AACCATGCGGGCTAGGAATGT
*
7358446 AACCCTGCGG
1 AACCATGCGG
7358456 TGGTGGCATA
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.22
Consensus pattern (21 bp):
AACCATGCGGGCTAGGAATGT
Found at i:7359996 original size:23 final size:23
Alignment explanation
Indices: 7359966--7360011 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7359956 TGGTTAAGTT
7359966 ACTTGGGAGTCGGGCAGGACAGG
1 ACTTGGGAGTCGGGCAGGACAGG
7359989 ACTTGGGAGTCGGGCAGGACAGG
1 ACTTGGGAGTCGGGCAGGACAGG
7360012 CTATGATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.48, T:0.13
Consensus pattern (23 bp):
ACTTGGGAGTCGGGCAGGACAGG
Found at i:7370943 original size:20 final size:20
Alignment explanation
Indices: 7370918--7370984 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
7370908 AAATATTTAA
7370918 TTAATAAATATAAAAATATT
1 TTAATAAATATAAAAATATT
* *
7370938 TTAATAAATATAAATATATA
1 TTAATAAATATAAAAATATT
*
7370958 ATAA-AAATATAAAAATATT
1 TTAATAAATATAAAAATATT
7370977 TTAATAAA
1 TTAATAAA
7370985 AAAGACTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.40
20 24 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAATAAATATAAAAATATT
Found at i:7370968 original size:39 final size:41
Alignment explanation
Indices: 7370908--7370984 Score: 131
Period size: 39 Copynumber: 1.9 Consensus size: 41
7370898 AAACATTCCA
*
7370908 AAATATTTAATTAATAAATATAAAAATATTTTAATAAATAT
1 AAATATATAATTAATAAATATAAAAATATTTTAATAAATAT
7370949 AAATATATAA-TAA-AAATATAAAAATATTTTAATAAA
1 AAATATATAATTAATAAATATAAAAATATTTTAATAAA
7370985 AAAGACTACT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 23 0.66
40 3 0.09
41 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (41 bp):
AAATATATAATTAATAAATATAAAAATATTTTAATAAATAT
Found at i:7371006 original size:19 final size:18
Alignment explanation
Indices: 7370982--7371063 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 18
7370972 ATATTTTAAT
*
7370982 AAAAAAGACTACTAATTTA
1 AAAAAAGA-AACTAATTTA
*
7371001 AAAAAATAAACTAATTTA
1 AAAAAAGAAACTAATTTA
*
7371019 AAAAGAATATAAC-AACTTTTTA
1 AAAA-AAGA-AACTAA---TTTA
*
7371041 AAGAAAAAAAACTAATTTA
1 AA-AAAAGAAACTAATTTA
7371060 AAAA
1 AAAA
7371064 TAAATTTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
18 15 0.28
19 19 0.36
20 3 0.06
21 3 0.06
22 11 0.21
23 2 0.04
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAAAAGAAACTAATTTA
Found at i:7371013 original size:21 final size:18
Alignment explanation
Indices: 7370992--7371063 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 18
7370982 AAAAAAGACT
*
7370992 ACTAATTTAAAAAAATAA
1 ACTAATTTAAAAAAAAAA
7371010 ACTAATTTAAAAAGAATATAACA
1 ACTAATTT-AAAA-AA-A-AA-A
*
7371033 ACT-TTTTAAAGAAAAAAA
1 ACTAATTTAAA-AAAAAAA
7371051 ACTAATTTAAAAA
1 ACTAATTTAAAAA
7371064 TAAATTTATT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
18 14 0.32
19 12 0.27
20 3 0.07
21 6 0.14
22 5 0.11
23 4 0.09
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (18 bp):
ACTAATTTAAAAAAAAAA
Found at i:7372015 original size:16 final size:16
Alignment explanation
Indices: 7371996--7372039 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
7371986 GATTAGAAGG
*
7371996 GTTAGTTGTTAGAAAA
1 GTTAGTAGTTAGAAAA
*
7372012 GTTAGCAGTTAGAAAA
1 GTTAGTAGTTAGAAAA
*
7372028 GTTAGTGGTTAG
1 GTTAGTAGTTAG
7372040 CATATTCCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (16 bp):
GTTAGTAGTTAGAAAA
Found at i:7373513 original size:60 final size:60
Alignment explanation
Indices: 7373449--7373567 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
7373439 GTTCCTTCTC
7373449 GTTAAACATTTTGAGATATAATTTGGAGACAACACGGTTCATTCATGATGAGGAAGTCTG
1 GTTAAACATTTTGAGATATAATTTGGAGACAACACGGTTCATTCATGATGAGGAAGTCTG
* *
7373509 GTTAAACATTTTGGGATATAATTTGGAGACAACACGGTTCATTCGTGATGAGGAAGTCT
1 GTTAAACATTTTGAGATATAATTTGGAGACAACACGGTTCATTCATGATGAGGAAGTCT
7373568 AATTACCTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (60 bp):
GTTAAACATTTTGAGATATAATTTGGAGACAACACGGTTCATTCATGATGAGGAAGTCTG
Found at i:7373723 original size:139 final size:139
Alignment explanation
Indices: 7373526--7374167 Score: 693
Period size: 139 Copynumber: 4.6 Consensus size: 139
7373516 ATTTTGGGAT
* * * *
7373526 ATAATTTGGAGACAACACGGTTCAT-TCGTGATGAGGAAGTCTAATTACCTGAA-GATGACACTA
1 ATAATTTGGAGACAACACGGTTCCTAT-GTGATGAGGAAGTCTGATTATCT-AAGGATGACACTG
* * * * *
7373589 CTCATTCGCGTTGAGGAGATCT-AGTCGGTAGATGACATTGTTCCTACGTGATGAGGACGTCTAG
64 CTCCTTCGCGTTGAGGAGATCTGA-TCGATGGACGACATTGTTCCTACGTGATGAGGACATCTAG
*
7373653 CCTTCTTTAGGG
128 CCATCTTTAGGG
* ** * * ** * *
7373665 ATAATTTGGAGACAACACGGTTCCTATATGATGAAAAAGTCTGGTTATCTGATTATGACGCTTCT
1 ATAATTTGGAGACAACACGGTTCCTATGTGATGAGGAAGTCTGATTATCTAAGGATGACACTGCT
* * ** *
7373730 CCTACGCGTTGTGGAGATCTGATCGATGGAAAACATAGTTCCTACGTGATGAGGACATCTAGCCA
66 CCTTCGCGTTGAGGAGATCTGATCGATGGACGACATTGTTCCTACGTGATGAGGACATCTAGCCA
7373795 TCTTTAGGG
131 TCTTTAGGG
* * * * * *
7373804 ATAATTTAGAGACAGCATGGTTCCTACGTGATAAGGAAGTATGATTATCTAAGGATGACACTGCT
1 ATAATTTGGAGACAACACGGTTCCTATGTGATGAGGAAGTCTGATTATCTAAGGATGACACTGCT
* * * * *
7373869 CCTACGCGTTGAGGAGATTTGAT-TAGTGGACGATAATGTTCCTACGTGATGAGGACATCTAGCC
66 CCTTCGCGTTGAGGAGATCTGATCGA-TGGACGACATTGTTCCTACGTGATGAGGACATCTAGCC
*
7373933 ACCTTTAGGG
130 ATCTTTAGGG
* * * * *
7373943 ATACTTTGAAGACAACACGGTTCCTATGT-ATTGAGGAAGTCTAGA-TGTCTAAGGATGACGCTT
1 ATAATTTGGAGACAACACGGTTCCTATGTGA-TGAGGAAGTCT-GATTATCTAAGGATGACACTG
* * * * * * **
7374006 CTCTTTCGTGTTGAGGAGATCTGGTTGATGAACGACATTGTTCCTACATGATGAGGATGTCTAGC
64 CTCCTTCGCGTTGAGGAGATCTGATCGATGGACGACATTGTTCCTACGTGATGAGGACATCTAGC
**
7374071 TGTCTTTAGGG
129 CATCTTTAGGG
* * *
7374082 ATAATTTGGAGACAACACGGTTCCTACGTGTTGAGGAAGTATGATTATCTAAGGATGACACTGCT
1 ATAATTTGGAGACAACACGGTTCCTATGTGATGAGGAAGTCTGATTATCTAAGGATGACACTGCT
*
7374147 CCTTCGCGTTAAGGAGATCTG
66 CCTTCGCGTTGAGGAGATCTG
7374168 GTCATAGTTG
Statistics
Matches: 412, Mismatches: 82, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
138 5 0.01
139 402 0.98
140 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (139 bp):
ATAATTTGGAGACAACACGGTTCCTATGTGATGAGGAAGTCTGATTATCTAAGGATGACACTGCT
CCTTCGCGTTGAGGAGATCTGATCGATGGACGACATTGTTCCTACGTGATGAGGACATCTAGCCA
TCTTTAGGG
Found at i:7374514 original size:102 final size:100
Alignment explanation
Indices: 7374427--7374608 Score: 226
Period size: 102 Copynumber: 1.8 Consensus size: 100
7374417 CTCAAAGGTT
* * * *
7374427 ATCAATTTTGTTTTAAGTGAAACAA-TTTCCAAATTTTTTGTTTTGAGGGAAAAAT-ATCTCAAG
1 ATCAATTTTGTTTCAAGTAAAACAACTTT-CAAA-TTTGTGTTTAGA-GG--AAATCATCTCAAG
* *
7374490 CGAGACG-AGTTTGTTTTGAAAGAAACAATCTCATGTGAG
61 CGAGACGAAATTTGTTTTGAAAGAAACAATCTCAAGTGAG
* *
7374529 ATTAATTTTGTTTCAAGTAAAACAACTTTGAAATTTGTGTTTAGAGGAAATCATCTCAAGCGAGA
1 ATCAATTTTGTTTCAAGTAAAACAACTTTCAAATTTGTGTTTAGAGGAAATCATCTCAAGCGAGA
7374594 CGAAATTTGTTTTGA
66 CGAAATTTGTTTTGA
7374609 GGAAAAACGA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
98 4 0.06
99 15 0.21
100 13 0.19
101 10 0.14
102 25 0.36
103 3 0.04
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (100 bp):
ATCAATTTTGTTTCAAGTAAAACAACTTTCAAATTTGTGTTTAGAGGAAATCATCTCAAGCGAGA
CGAAATTTGTTTTGAAAGAAACAATCTCAAGTGAG
Found at i:7376789 original size:24 final size:23
Alignment explanation
Indices: 7376756--7376819 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
7376746 TTTTATTTTC
*
7376756 AAAAA-TTTGAAAATATCAATTA
1 AAAAATTTTGAAAATATCAATCA
* *
7376778 AAAGAATTTTGAAAATGTTTAATCA
1 AAA-AATTTTGAAAAT-ATCAATCA
*
7376803 AAAAATTTGGAAAATAT
1 AAAAATTTTGAAAATAT
7376820 TGCCCCTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 3 0.09
23 3 0.09
24 20 0.59
25 8 0.24
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (23 bp):
AAAAATTTTGAAAATATCAATCA
Found at i:7381603 original size:13 final size:13
Alignment explanation
Indices: 7381572--7381655 Score: 109
Period size: 13 Copynumber: 6.3 Consensus size: 13
7381562 GTCACAACCC
7381572 GACCCGACCCGTT
1 GACCCGACCCGTT
7381585 GA-CCGACCCGTT
1 GACCCGACCCGTT
7381597 GACCCGACCCGTT
1 GACCCGACCCGTT
7381610 GA-CCGACCCGACCGTT
1 GACCCGA--C--CCGTT
*
7381626 TACCCGACCCGTT
1 GACCCGACCCGTT
7381639 GACCCGACCCGTT
1 GACCCGACCCGTT
7381652 GACC
1 GACC
7381656 GTTGACCCAT
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
12 16 0.25
13 35 0.56
14 1 0.02
15 1 0.02
16 6 0.10
17 4 0.06
ACGTcount: A:0.17, C:0.45, G:0.23, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:7381606 original size:25 final size:25
Alignment explanation
Indices: 7381572--7381655 Score: 114
Period size: 25 Copynumber: 3.2 Consensus size: 25
7381562 GTCACAACCC
7381572 GACCCGACCCGTTGACCGACCCGTT
1 GACCCGACCCGTTGACCGACCCGTT
7381597 GACCCGACCCGTTGACCGACCCGACCGTT
1 GACCCGACCCGTTGACCGA--C--CCGTT
*
7381626 TACCCGACCCGTTGACCCGACCCGTT
1 GACCCGACCCGTTGA-CCGACCCGTT
7381652 GACC
1 GACC
7381656 GTTGACCCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
25 19 0.37
26 8 0.15
27 1 0.02
28 1 0.02
29 19 0.37
30 4 0.08
ACGTcount: A:0.17, C:0.45, G:0.23, T:0.15
Consensus pattern (25 bp):
GACCCGACCCGTTGACCGACCCGTT
Found at i:7381617 original size:17 final size:17
Alignment explanation
Indices: 7381597--7381636 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7381587 CCGACCCGTT
7381597 GACCCGACCCGTTGA-CC
1 GACCCGA-CCGTTGACCC
*
7381614 GACCCGACCGTTTACCC
1 GACCCGACCGTTGACCC
7381631 GACCCG
1 GACCCG
7381637 TTGACCCGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.12
Consensus pattern (17 bp):
GACCCGACCGTTGACCC
Found at i:7381617 original size:42 final size:42
Alignment explanation
Indices: 7381572--7381663 Score: 68
Period size: 42 Copynumber: 2.1 Consensus size: 42
7381562 GTCACAACCC
7381572 GACCCGACCCGTTGA-CCGACCCGTTGACCCGACCCGTTGACC---
1 GACCCGACCCGTTGACCCGACCCGTTGA-CCGACCC---GACCGTT
*
7381614 GACCCGA-CCGTTTACCCGACCCGTTGACCCGACCCGTTGACCGTT
1 GACCCGACCCGTTGACCCGACCCGTTGA-CCGACCC---GACCGTT
7381659 GACCC
1 GACCC
7381664 ATTGACCGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
41 6 0.13
42 34 0.76
45 5 0.11
ACGTcount: A:0.16, C:0.45, G:0.23, T:0.16
Consensus pattern (42 bp):
GACCCGACCCGTTGACCCGACCCGTTGACCGACCCGACCGTT
Found at i:7381644 original size:8 final size:8
Alignment explanation
Indices: 7381631--7381687 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
7381621 CCGTTTACCC
7381631 GACCCGTT
1 GACCCGTT
7381639 GACCC---
1 GACCCGTT
7381644 GACCCGTT
1 GACCCGTT
7381652 GA-CCGTT
1 GACCCGTT
*
7381659 GACCCATT
1 GACCCGTT
7381667 GA-CCGTT
1 GACCCGTT
7381674 GACCACTGTT
1 GACC-C-GTT
7381684 GACC
1 GACC
7381688 AAACTTTGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
5 5 0.12
7 13 0.32
8 14 0.35
9 1 0.03
10 7 0.17
ACGTcount: A:0.18, C:0.37, G:0.23, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:7381668 original size:15 final size:15
Alignment explanation
Indices: 7381644--7381677 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
7381634 CCGTTGACCC
*
7381644 GACCCGTTGACCGTT
1 GACCCATTGACCGTT
7381659 GACCCATTGACCGTT
1 GACCCATTGACCGTT
7381674 GACC
1 GACC
7381678 ACTGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:7384144 original size:23 final size:23
Alignment explanation
Indices: 7384118--7384191 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
7384108 AATTCTATTA
*
7384118 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
7384141 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
7384164 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
7384188 TGAT
1 TGAT
7384192 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:7384179 original size:24 final size:24
Alignment explanation
Indices: 7384124--7384198 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
7384114 ATTATGATCC
7384124 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
7384147 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
7384171 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
7384195 TGAC
1 TGAC
7384199 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:7385547 original size:16 final size:16
Alignment explanation
Indices: 7385526--7385560 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7385516 CAAATAAATA
7385526 AAAGGTTAGC-AGTTAG
1 AAAGGTTAGCTA-TTAG
7385542 AAAGGTTAGCTATTAG
1 AAAGGTTAGCTATTAG
7385558 AAA
1 AAA
7385561 AGTTCGTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
AAAGGTTAGCTATTAG
Found at i:7387724 original size:21 final size:21
Alignment explanation
Indices: 7387691--7387752 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
7387681 TTTCTTTCAA
* * *
7387691 ATATGAATCATTCATTCAAAT
1 ATATTAATTATTCATTTAAAT
* *
7387712 ATATTAATTATTCTTTTGAAT
1 ATATTAATTATTCATTTAAAT
*
7387733 ATTTTAATTATT-ATTTAAAT
1 ATATTAATTATTCATTTAAAT
7387753 TTAAAAAGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (21 bp):
ATATTAATTATTCATTTAAAT
Found at i:7387975 original size:17 final size:17
Alignment explanation
Indices: 7387944--7387987 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
7387934 TACATTTTAA
7387944 AAACATTTAACAAACATT
1 AAACATTT-ACAAACATT
*
7387962 TAACATTTACAAACATT
1 AAACATTTACAAACATT
7387979 AAACATTTA
1 AAACATTTA
7387988 AAAAAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (17 bp):
AAACATTTACAAACATT
Found at i:7388485 original size:21 final size:21
Alignment explanation
Indices: 7388461--7388532 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
7388451 GGTGTCATAA
7388461 AACCTTGCGGGCTAGGAATAT
1 AACCTTGCGGGCTAGGAATAT
* * *
7388482 AACCTTGCGGGCTGGGTATGT
1 AACCTTGCGGGCTAGGAATAT
* * *
7388503 ACCCGTGTGGGCTAGGAATAT
1 AACCTTGCGGGCTAGGAATAT
*
7388524 AACCCTGCG
1 AACCTTGCG
7388533 ATAGTGGCAT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (21 bp):
AACCTTGCGGGCTAGGAATAT
Found at i:7390408 original size:20 final size:19
Alignment explanation
Indices: 7390383--7390454 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 19
7390373 AATATTTTAA
7390383 TAAAAAACAATATACTAATT
1 TAAAAAA-AATATACTAATT
*
7390403 TAAAAAGAATATAAC-AACTTTT
1 TAAAAAAAATAT-ACTAA---TT
*
7390425 TAAAGAAAATATACTAATT
1 TAAAAAAAATATACTAATT
7390444 TAAAAATAAAT
1 TAAAAA-AAAT
7390455 TTATTACCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
19 14 0.33
20 12 0.29
21 2 0.05
22 14 0.33
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAAAAAAATATACTAATT
Found at i:7391106 original size:22 final size:22
Alignment explanation
Indices: 7391071--7391125 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
7391061 TATTTTTATA
*
7391071 TTAAAAATGAATTTATAA-ATT
1 TTAAAAATAAATTTATAATATT
7391092 TTAAATAATAAATTTATAATATT
1 TTAAA-AATAAATTTATAATATT
7391115 TTAAAAATAAA
1 TTAAAAATAAA
7391126 ATAAAATACC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 5 0.16
22 18 0.58
23 8 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAAATAAATTTATAATATT
Found at i:7394507 original size:2 final size:2
Alignment explanation
Indices: 7394502--7394538 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7394492 GTGTGTGTGT
7394502 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
7394539 TCATGATCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7394765 original size:2 final size:2
Alignment explanation
Indices: 7394758--7394785 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7394748 ATCTTAACCC
7394758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7394786 GTACATGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7396288 original size:13 final size:13
Alignment explanation
Indices: 7396270--7396295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7396260 CACCGCTCGT
7396270 TGGTGGTGGTTCA
1 TGGTGGTGGTTCA
7396283 TGGTGGTGGTTCA
1 TGGTGGTGGTTCA
7396296 CGGCGGCCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.46, T:0.38
Consensus pattern (13 bp):
TGGTGGTGGTTCA
Found at i:7397130 original size:3 final size:3
Alignment explanation
Indices: 7397122--7397147 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7397112 TTAAAATGAG
7397122 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7397148 ACCCAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7397753 original size:259 final size:258
Alignment explanation
Indices: 7397275--7398512 Score: 1504
Period size: 259 Copynumber: 4.9 Consensus size: 258
7397265 TCAAGTAAGC
* * *
7397275 CTGACATATAACCTGAAGGATTTAATCATCATGCTCGAAAAACTTACTGATGGCCCGAAGGACTT
1 CTGACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG-CCGAAGGACTT
* * * *
7397340 ACTAATTTTGGAAATAGTTTACAAGGAAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAAT
65 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAAT
* * * * *
7397405 TTCATTTTCTGGAAATACTAAATAAGAAACTTTAAAAATCACCTTCTCATTTTTCAAATTATCAC
130 TTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCAC
* * *
7397470 ATGAAAGCATATTCCCCGAAGGTCTTATAGATGGCCTGAAGGACTTATCATCTTACTCAAAAGA
195 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTACTCAAAAGA
* * * * * *
7397534 CTGACAGATGACCCGAAGGATTTAATAATCATTCTCGAAAGTCTTATTGATGGCCGGAATGACTT
1 CTGACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC-GAAGGACTT
* * *
7397599 ACCAATTTTGGAAATAGTTTACTAGGTAATAAACTTTGGAAATAACTTTCTTACTTTTTAAAAAT
65 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAAT
* * * *
7397664 TTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCACCTTCTTATTTTTAAAATTATCAC
130 TTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCAC
* * * * * *
7397729 ATGAAAGAATCTTGCCCAAAGGTCTTATATATGGCCCGAAGGACTTATCTTATTGCTCAAAAGA
195 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTACTCAAAAGA
* * ** * *
7397793 CTGACAGATGATCTGAATGATTTAATCATCACACTCGAAAGACTTACCGATGACTC-AAGGACTT
1 CTGACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC-CGAAGGACTT
* *
7397857 ACCAATTTTGGAAATAGTTTAATAGGTAAGAAACTTTGGAAATCACTTTCTTA-TTTTTAAAATA
65 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAA-A
* *
7397921 TTTCATTTTCTGAAAATACTAAATGATG-AACTTTGAAAAATTGCTTTCTCATTTTTCAGATTAT
129 TTTCATTTTCTGAAAATACTAAATGA-GAAACTTTG-AAAATCGCTTTCTCATTTTTCAAATTAT
* * * ** * *
7397985 CATATGAAAGCATATTGCCCGAAGATCTTATAGATGGCTTGAAGGACTTATCAT-GTAGCTCGAA
192 CACATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTA-CTCAAA
7398049 AGA
256 AGA
* *
7398052 CTAACTGATGACCTGAAGGATTTAATCATCA---T-----G-C-T-C-GA------AA-GACTTA
1 CTGACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCGAAGGACTTA
* * *
7398098 CCAATTTTGGAAATAGTATACTAGGTAAGAAACTTTGGAAATCGA-TTTTTTACTTTTCAAAATT
66 CCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATC-ACTTTCTTACTTTTCAAAAAT
* * * *
7398162 TTCATTTTCTCAAAATATTAAATGAGAAACTTTGAAAATCGCTTTCTCACTTTTCAAATTATCAT
130 TTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCAC
* * * * *
7398227 ATGAAAACATCTTGCCTGAAGGTCTTATAGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGA
195 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTACTCAAAAGA
* * * * * *
7398291 CAGACAGATGACCCGAAGGATTTGATCATCATGCTCAAAAGACTTACTGATGGCAAGAATGACTT
1 CTGACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC-CGAAGGACTT
* * *
7398356 ACCAATTTTGGAAATAGTTTACTAGATAAGAAAATTTGGAAATCATTTTCTTACTTTTCAAAAAT
65 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAAT
*
7398421 TTCATTTTCTAAAAACAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
130 TTCATTTTCT--GAA-AATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
7398486 ---ATGAAAGCATCTTGCCCGAAGGTCTTA
192 CACATGAAAGCATCTTGCCCGAAGGTCTTA
7398513 CCAATTTCGG
Statistics
Matches: 845, Mismatches: 100, Indels: 68
0.83 0.10 0.07
Matches are distributed among these distances:
239 108 0.13
240 85 0.10
241 11 0.01
242 1 0.00
247 3 0.00
248 2 0.00
249 2 0.00
250 2 0.00
251 3 0.00
256 1 0.00
257 9 0.01
258 97 0.11
259 471 0.56
260 1 0.00
261 2 0.00
262 47 0.06
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (258 bp):
CTGACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCGAAGGACTTA
CCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
TCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCACA
TGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTACTCAAAAGA
Found at i:7398300 original size:41 final size:42
Alignment explanation
Indices: 7398255--7398333 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
7398245 AAGGTCTTAT
* * *
7398255 AGATGGCCCGAAGGACTT-ACCATCTTGCTCGAAAGACAGAC
1 AGATGACCCGAAGGACTTGACCATCATGCTCAAAAGACAGAC
* *
7398296 AGATGACCCGAAGGATTTGATCATCATGCTCAAAAGAC
1 AGATGACCCGAAGGACTTGACCATCATGCTCAAAAGAC
7398334 TTACTGATGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 16 0.50
42 16 0.50
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (42 bp):
AGATGACCCGAAGGACTTGACCATCATGCTCAAAAGACAGAC
Found at i:7398321 original size:239 final size:240
Alignment explanation
Indices: 7397852--7398337 Score: 703
Period size: 239 Copynumber: 2.0 Consensus size: 240
7397842 ATGACTCAAG
* *
7397852 GACTTACCAATTTTGGAAATAGTTTAATAGGTAAGAAACTTTGGAAATCACTTTCTTATTTTTAA
1 GACTTACCAATTTTGGAAATAGTATAATAGGTAAGAAACTTTGGAAATCACTTTCTTATTTTCAA
* * * *
7397917 AATATTTCATTTTCTGAAAATACTAAATGATGAACTTTGAAAAATTGCTTTCTCATTTTTCAGAT
66 AATATTTCATTTTCTCAAAATACTAAATGATGAACTTTGAAAAATCGCTTTCTCACTTTTCAAAT
* ** * *
7397982 TATCATATGAAAGCATATTGCCCGAAGATCTTATAGATGGCTTGAAGGACTTATCATGTAGCTCG
131 TATCATATGAAAACATATTGCCCGAAGATCTTATAGATGGCCCGAAGGACTTACCATCTAGCTCG
* * *
7398047 AAAGACTAACTGATGACCTGAAGGATTTAATCATCATGCTCGAAA
196 AAAGACTAACAGATGACCCGAAGGATTTAATCATCATGCTCAAAA
* *
7398092 GACTTACCAATTTTGGAAATAGTATACTAGGTAAGAAACTTTGGAAATCGA-TTTTTTACTTTTC
1 GACTTACCAATTTTGGAAATAGTATAATAGGTAAGAAACTTTGGAAATC-ACTTTCTTA-TTTTC
*
7398156 AAAAT-TTTCATTTTCTCAAAATATTAAATGA-GAAACTTTG-AAAATCGCTTTCTCACTTTTCA
64 AAAATATTTCATTTTCTCAAAATACTAAATGATG-AACTTTGAAAAATCGCTTTCTCACTTTTCA
* * * *
7398218 AATTATCATATGAAAACATCTTGCCTGAAGGTCTTATAGATGGCCCGAAGGACTTACCATCTTGC
128 AATTATCATATGAAAACATATTGCCCGAAGATCTTATAGATGGCCCGAAGGACTTACCATCTAGC
*
7398283 TCGAAAGAC-AGACAGATGACCCGAAGGATTTGATCATCATGCTCAAAA
193 TCGAAAGACTA-ACAGATGACCCGAAGGATTTAATCATCATGCTCAAAA
7398331 GACTTAC
1 GACTTAC
7398338 TGATGGCAAG
Statistics
Matches: 220, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
238 1 0.00
239 125 0.57
240 84 0.38
241 10 0.05
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (240 bp):
GACTTACCAATTTTGGAAATAGTATAATAGGTAAGAAACTTTGGAAATCACTTTCTTATTTTCAA
AATATTTCATTTTCTCAAAATACTAAATGATGAACTTTGAAAAATCGCTTTCTCACTTTTCAAAT
TATCATATGAAAACATATTGCCCGAAGATCTTATAGATGGCCCGAAGGACTTACCATCTAGCTCG
AAAGACTAACAGATGACCCGAAGGATTTAATCATCATGCTCAAAA
Found at i:7398334 original size:498 final size:497
Alignment explanation
Indices: 7397594--7398512 Score: 1312
Period size: 498 Copynumber: 1.8 Consensus size: 497
7397584 TGGCCGGAAT
* * *
7397594 GACTTACCAATTTTGGAAATAGTTTACTAGGTAATAAACTTTGGAAATAACTTTCTTACTTTTTA
1 GACTTACCAATTTTGGAAATAGTATACTAGGTAAGAAACTTTGGAAATAACTTTCTTACTTTTCA
* * *
7397659 AAAATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCACCTTCTTATTTTTAAAATT
66 AAAATTTCATTTTCTCAAAATACTAAATGAGAAACTTTGAAAATCACCTTCTCACTTTTAAAATT
* * *
7397724 ATCACATGAAAGAATCTTGCCCAAAGGTCTTATATATGGCCCGAAGGACTTATCTTATTGCTCAA
131 ATCACATGAAAGAATCTTGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTACCATATTGCTCAA
* * * * * *
7397789 AAGACTGACAGATGATCTGAATGATTTAATCATCACACTCGAAAGACTTACCGATGAC-TCAAGG
196 AAGACAGACAGATGACCCGAAGGATTTAATCATCACACTCAAAAGACTTACCGATGACAACAAGG
* * *
7397853 ACTTACCAATTTTGGAAATAGTTTAATAGGTAAGAAACTTTGGAAATCACTTTCTTA-TTTTTAA
261 ACTTACCAATTTTGGAAATAGTTTAATAGATAAGAAAATTTGGAAATCACTTTCTTACTTTTCAA
* *
7397917 AATATTTCATTTTCT-GAA-AATACTAAATGATG-AACTTTGAAAAATTGCTTTCTCATTTTTCA
326 AA-ATTTCATTTTCTAAAACAATACTAAATGA-GAAACTTTG-AAAATCGCTTTCTCATTTTTCA
7397979 GATTATCATATGAAAGCATATTGCCCGAAGATCTTATAGATGGCTTGAAGGACTTATCATGTAGC
388 -A--ATCATATGAAAGCATATTGCCCGAAGATCTTATAGATGGCTTGAAGGACTTATCATGTAGC
7398044 TCGAAAGACTAACTGATGACCTGAAGGATTTAATCATCATGCTCGAAA
450 TCGAAAGACTAACTGATGACCTGAAGGATTTAATCATCATGCTCGAAA
* *
7398092 GACTTACCAATTTTGGAAATAGTATACTAGGTAAGAAACTTTGGAAATCGA-TTTTTTACTTTTC
1 GACTTACCAATTTTGGAAATAGTATACTAGGTAAGAAACTTTGGAAAT-AACTTTCTTACTTTTC
* * * * *
7398156 AAAATTTTCATTTTCTCAAAATATTAAATGAGAAACTTTGAAAATCGCTTTCTCACTTTTCAAAT
65 AAAAATTTCATTTTCTCAAAATACTAAATGAGAAACTTTGAAAATCACCTTCTCACTTTTAAAAT
* ** *
7398221 TATCATATGAAA-ACATCTTGCCTGAAGGTCTTATAGATGGCCCGAAGGACTTACCATCTTGCTC
130 TATCACATGAAAGA-ATCTTGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTACCATATTGCTC
* * ** * * *
7398285 GAAAGACAGACAGATGACCCGAAGGATTTGATCATCATGCTCAAAAGACTTACTGATGGCAAGAA
194 AAAAGACAGACAGATGACCCGAAGGATTTAATCATCACACTCAAAAGACTTACCGATGACAACAA
* * *
7398350 TGACTTACCAATTTTGGAAATAGTTTACTAGATAAGAAAATTTGGAAATCATTTTCTTACTTTTC
259 GGACTTACCAATTTTGGAAATAGTTTAATAGATAAGAAAATTTGGAAATCACTTTCTTACTTTTC
7398415 AAAAATTTCATTTTCTAAAAACAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCA
324 AAAAATTTCATTTTCT-AAAACAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCA
* * *
7398480 AATTATATGAAAGCATCTTGCCCGAAGGTCTTA
388 AATCATATGAAAGCATATTGCCCGAAGATCTTA
7398513 CCAATTTCGG
Statistics
Matches: 369, Mismatches: 44, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
497 1 0.00
498 247 0.67
499 69 0.19
500 9 0.02
501 24 0.07
502 19 0.05
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (497 bp):
GACTTACCAATTTTGGAAATAGTATACTAGGTAAGAAACTTTGGAAATAACTTTCTTACTTTTCA
AAAATTTCATTTTCTCAAAATACTAAATGAGAAACTTTGAAAATCACCTTCTCACTTTTAAAATT
ATCACATGAAAGAATCTTGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTACCATATTGCTCAA
AAGACAGACAGATGACCCGAAGGATTTAATCATCACACTCAAAAGACTTACCGATGACAACAAGG
ACTTACCAATTTTGGAAATAGTTTAATAGATAAGAAAATTTGGAAATCACTTTCTTACTTTTCAA
AAATTTCATTTTCTAAAACAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAAT
CATATGAAAGCATATTGCCCGAAGATCTTATAGATGGCTTGAAGGACTTATCATGTAGCTCGAAA
GACTAACTGATGACCTGAAGGATTTAATCATCATGCTCGAAA
Found at i:7398865 original size:33 final size:33
Alignment explanation
Indices: 7398823--7398887 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
7398813 GTGACTTTAT
*
7398823 TGCCTCAAAGAGAGGTAAGGGTATGAATTTGGG
1 TGCCTCAAAGAGAGGTAAGAGTATGAATTTGGG
* *
7398856 TGCCTCAAAGATAGGTAATAGTATGAATTTGG
1 TGCCTCAAAGAGAGGTAAGAGTATGAATTTGG
7398888 TGACTCAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (33 bp):
TGCCTCAAAGAGAGGTAAGAGTATGAATTTGGG
Found at i:7406381 original size:30 final size:32
Alignment explanation
Indices: 7406347--7406411 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 32
7406337 CAAACTAAAC
7406347 ATGTTTTAACT-C-TAATTCCTAATAAAATAA
1 ATGTTTTAACTACTTAATTCCTAATAAAATAA
7406377 ATGTTTTAACTCAACCTTAATTCCTAATAAAATAA
1 ATGTTTTAACT--A-CTTAATTCCTAATAAAATAA
7406412 TAAATCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 11 0.37
34 1 0.03
35 18 0.60
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.38
Consensus pattern (32 bp):
ATGTTTTAACTACTTAATTCCTAATAAAATAA
Found at i:7409383 original size:3 final size:3
Alignment explanation
Indices: 7409366--7409402 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
7409356 TAAAAATGGG
*
7409366 AAT AAA AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7409403 ACTCAGACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7409756 original size:14 final size:15
Alignment explanation
Indices: 7409737--7409765 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7409727 ATAATTTATT
7409737 AATAATAT-TTTTTA
1 AATAATATATTTTTA
7409751 AATAATATATTTTTA
1 AATAATATATTTTTA
7409766 TTAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATAATATATTTTTA
Found at i:7409775 original size:18 final size:17
Alignment explanation
Indices: 7409744--7409779 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7409734 ATTAATAATA
*
7409744 TTTTTTAAATAATATAT
1 TTTTTTAAAAAATATAT
7409761 TTTTATTAAAAAATATAT
1 TTTT-TTAAAAAATATAT
7409779 T
1 T
7409780 ATCAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTTAAAAAATATAT
Found at i:7410969 original size:23 final size:24
Alignment explanation
Indices: 7410942--7410992 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7410932 TTAAGGTATA
*
7410942 TTTT-ATTATATTTAA-TATTTAGT
1 TTTTAATT-TATTTAAGTATTTAAT
7410965 TTTTAATTTATTTAAGTATTTAAT
1 TTTTAATTTATTTAAGTATTTAAT
7410989 TTTT
1 TTTT
7410993 TTTTAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTTAATTTATTTAAGTATTTAAT
Found at i:7410988 original size:17 final size:16
Alignment explanation
Indices: 7410957--7410990 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7410947 TTATATTTAA
*
7410957 TATTTAGTTTTTAATT
1 TATTTAGTATTTAATT
7410973 TATTTAAGTATTTAATT
1 TATTT-AGTATTTAATT
7410990 T
1 T
7410991 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TATTTAGTATTTAATT
Found at i:7410997 original size:23 final size:22
Alignment explanation
Indices: 7410941--7410997 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
7410931 TTTAAGGTAT
* *
7410941 ATTTTATTATATTTAATATTTA
1 ATTTTTTTTTATTTAATATTTA
* *
7410963 GTTTTTAATTTATTTAAGTATTTA
1 ATTTTT-TTTTATTTAA-TATTTA
7410987 ATTTTTTTTTA
1 ATTTTTTTTTA
7410998 ATATTTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 4 0.15
23 12 0.44
24 11 0.41
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTTTTTTATTTAATATTTA
Found at i:7411005 original size:27 final size:28
Alignment explanation
Indices: 7410950--7411022 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 28
7410940 TATTTTATTA
*
7410950 TATTTAATATTTAGTTTTTAATTTATTTAAG
1 TATTTAAT-TTT--TTTTTAATATATTTAAG
**
7410981 TATTTAATTTTTTTTTAATAT-TTTATT
1 TATTTAATTTTTTTTTAATATATTTAAG
*
7411008 TAATTAATTTTTTTT
1 TATTTAATTTTTTTT
7411023 ACAGATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 18 0.47
28 9 0.24
30 3 0.08
31 8 0.21
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (28 bp):
TATTTAATTTTTTTTTAATATATTTAAG
Found at i:7412751 original size:27 final size:27
Alignment explanation
Indices: 7412721--7412773 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
7412711 TTACCCGATG
*
7412721 CCGCCACCATCACCTGGTTTTATGACT
1 CCGCCACCACCACCTGGTTTTATGACT
** *
7412748 CCGCCGTCGCCACCTGGTTTTATGAC
1 CCGCCACCACCACCTGGTTTTATGAC
7412774 CCTGCCGCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.38, G:0.19, T:0.28
Consensus pattern (27 bp):
CCGCCACCACCACCTGGTTTTATGACT
Found at i:7412780 original size:27 final size:27
Alignment explanation
Indices: 7412731--7412788 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
7412721 CCGCCACCAT
7412731 CACCTGGTTTTATGACTCCGCCG-TCGC
1 CACCTGGTTTTATGACTCCGCCGCT-GC
7412758 CACCTGGTTTTATGAC-CCTGCCGCTGC
1 CACCTGGTTTTATGACTCC-GCCGCTGC
7412785 CACC
1 CACC
7412789 GTCACAGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 2 0.07
27 26 0.90
28 1 0.03
ACGTcount: A:0.12, C:0.40, G:0.21, T:0.28
Consensus pattern (27 bp):
CACCTGGTTTTATGACTCCGCCGCTGC
Found at i:7413098 original size:3 final size:3
Alignment explanation
Indices: 7413086--7413120 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
7413076 CGACGACGAC
* *
7413086 GAT GAA GAT GAT GAT GAT GAT GGT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
7413121 CAGCGAGGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:7417576 original size:23 final size:23
Alignment explanation
Indices: 7417518--7417637 Score: 215
Period size: 23 Copynumber: 5.3 Consensus size: 23
7417508 AGAAGATTGT
7417518 GTGGGTATAATTATGGAATAGAA
1 GTGGGTATAATTATGGAATAGAA
*
7417541 GT-GGTATACTTATGGAATAGAA
1 GTGGGTATAATTATGGAATAGAA
7417563 GTGGGTATAATTATGGAATAGAA
1 GTGGGTATAATTATGGAATAGAA
*
7417586 GTGGGTATACTTATGGAATAGAA
1 GTGGGTATAATTATGGAATAGAA
7417609 GTGGGTATAATTATGGAATAGAA
1 GTGGGTATAATTATGGAATAGAA
7417632 GTGGGT
1 GTGGGT
7417638 TCGCAAGGTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
22 21 0.23
23 71 0.77
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.31
Consensus pattern (23 bp):
GTGGGTATAATTATGGAATAGAA
Found at i:7419848 original size:85 final size:83
Alignment explanation
Indices: 7419708--7419891 Score: 239
Period size: 85 Copynumber: 2.2 Consensus size: 83
7419698 TAAACTCGAG
* *
7419708 TTTAGGATAATATTTT-AAACATTATATTTTATTTTTGTTTTAGATATTTTAGTTTAAATAGATG
1 TTTAGGATATTATTTTAAAACATTATATTTTATCTTTGTTTTAGATATTTTAGTTTAAATA-ATG
7419772 TT-AGT-TTTTCAATTAGGA
65 TTAAGTGTTTT-AATTAGGA
* * *
7419790 TTTAGGATATTATTTTAATTAATATTTTATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAT
1 TTTAGGATATTATTTTAA--AACATTATATTTTATCTTTGTTTTAGATATTTTAGTTTAAATAAT
*
7419855 TTTAAGTGTTTTAATTAGGA
64 GTTAAGTGTTTTAATTAGGA
* *
7419875 TTTAAGATGTTATTTTA
1 TTTAGGATATTATTTTA
7419892 GGAATTATCT
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
82 15 0.17
83 1 0.01
84 4 0.04
85 65 0.73
86 4 0.04
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (83 bp):
TTTAGGATATTATTTTAAAACATTATATTTTATCTTTGTTTTAGATATTTTAGTTTAAATAATGT
TAAGTGTTTTAATTAGGA
Found at i:7420219 original size:18 final size:18
Alignment explanation
Indices: 7420196--7420230 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7420186 TTCAATGGCT
* *
7420196 TATTTTTCAAATCAAAAC
1 TATTTTCCAAACCAAAAC
7420214 TATTTTCCAAACCAAAA
1 TATTTTCCAAACCAAAA
7420231 GTCGACGTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
TATTTTCCAAACCAAAAC
Found at i:7422078 original size:21 final size:21
Alignment explanation
Indices: 7422036--7422089 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
7422026 AGCAATTTCA
* * * *
7422036 CAAGAAAAGTTGGTTACGTCC
1 CAAGAAAAGCTAGTCACATCC
7422057 CAAGAAAAGCTAGTCACATCC
1 CAAGAAAAGCTAGTCACATCC
*
7422078 CAGGAAAAGCTA
1 CAAGAAAAGCTA
7422090 ATTGCATCCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (21 bp):
CAAGAAAAGCTAGTCACATCC
Found at i:7422097 original size:21 final size:21
Alignment explanation
Indices: 7422054--7422106 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7422044 GTTGGTTACG
* *
7422054 TCCCAAGAAAAGCTAGTCACA
1 TCCCAGGAAAAGCTAATCACA
**
7422075 TCCCAGGAAAAGCTAATTGCA
1 TCCCAGGAAAAGCTAATCACA
7422096 TCCCAGGAAAA
1 TCCCAGGAAAA
7422107 ATTCCAAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (21 bp):
TCCCAGGAAAAGCTAATCACA
Found at i:7425768 original size:29 final size:29
Alignment explanation
Indices: 7425726--7425783 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
7425716 GAATATATCT
7425726 TCTTCTCCTCTTTTTCTTCCATACGAGAG
1 TCTTCTCCTCTTTTTCTTCCATACGAGAG
7425755 TCTTCTCCTCTTTTTCTTCCATACGAGAG
1 TCTTCTCCTCTTTTTCTTCCATACGAGAG
7425784 AAAGCCATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.14, C:0.31, G:0.10, T:0.45
Consensus pattern (29 bp):
TCTTCTCCTCTTTTTCTTCCATACGAGAG
Found at i:7426342 original size:21 final size:20
Alignment explanation
Indices: 7426303--7426340 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7426293 AGTATGTTCA
7426303 GGGGGTATCGATTCCCCCTG
1 GGGGGTATCGATTCCCCCTG
7426323 GGGGGTATCGATTCCCCC
1 GGGGGTATCGATTCCCCC
7426341 CTAAAGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
GGGGGTATCGATTCCCCCTG
Found at i:7427001 original size:15 final size:15
Alignment explanation
Indices: 7426983--7427062 Score: 160
Period size: 15 Copynumber: 5.3 Consensus size: 15
7426973 CGAGGGTATT
7426983 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
7426998 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
7427013 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
7427028 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
7427043 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
7427058 GTAGT
1 GTAGT
7427063 GGTCCTACGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 65 1.00
ACGTcount: A:0.14, C:0.25, G:0.34, T:0.28
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:7433951 original size:15 final size:15
Alignment explanation
Indices: 7433933--7434057 Score: 205
Period size: 15 Copynumber: 8.3 Consensus size: 15
7433923 CGAGGGTATT
7433933 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
7433948 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
*
7433963 GTAGTCCTTCGGGAT
1 GTAGTCCTTCGGGAC
7433978 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
*
7433993 GTAGTCGTTCGGGAC
1 GTAGTCCTTCGGGAC
* *
7434008 GTAGTCCTTTGGGAT
1 GTAGTCCTTCGGGAC
*
7434023 GTAGTCCTTCGGGAT
1 GTAGTCCTTCGGGAC
7434038 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
7434053 GTAGT
1 GTAGT
7434058 GGTCCTACGG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 102 1.00
ACGTcount: A:0.14, C:0.22, G:0.34, T:0.30
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:7438232 original size:59 final size:59
Alignment explanation
Indices: 7438140--7438258 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
7438130 TGAAGTCGGA
7438140 ATTATTTTGATAACAAAATGATGGTTATCAAGTGAATACGAAATTGCACTTGAACATGG
1 ATTATTTTGATAACAAAATGATGGTTATCAAGTGAATACGAAATTGCACTTGAACATGG
7438199 ATTATTTTGATAACAAAATGATGGTTATCAAGTGAATACGAAATTGCACTTGAACATGG
1 ATTATTTTGATAACAAAATGATGGTTATCAAGTGAATACGAAATTGCACTTGAACATGG
7438258 A
1 A
7438259 AATAGACAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (59 bp):
ATTATTTTGATAACAAAATGATGGTTATCAAGTGAATACGAAATTGCACTTGAACATGG
Found at i:7447189 original size:17 final size:18
Alignment explanation
Indices: 7447156--7447191 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7447146 ATTCCAAGAA
7447156 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
7447174 AAATATA-TATTTTTTAT
1 AAATATATTAATTTTTAT
7447191 A
1 A
7447192 TTTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:7448862 original size:3 final size:3
Alignment explanation
Indices: 7448841--7448955 Score: 143
Period size: 3 Copynumber: 40.0 Consensus size: 3
7448831 GCATGTAATG
*
7448841 TAA TAA -AA TAA T-T TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
7448886 TAG T-A TAAA TAA -AA TAA TAC TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
7448929 TAA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
7448956 AAAACAAATG
Statistics
Matches: 97, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
2 10 0.10
3 85 0.88
4 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7449403 original size:123 final size:123
Alignment explanation
Indices: 7449159--7449885 Score: 1082
Period size: 124 Copynumber: 5.9 Consensus size: 123
7449149 GATGATAATT
* * * * * *
7449159 TATCTTCTTCTGTGA-AGTAATCTAGCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTATTC
1 TATCTCCTTCTGTGATAG-AGTC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT-
* * * *
7449223 TTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAAATTTATCTGGAAATGTTG-ATGTTGATC
63 TT-TCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGTATGTTGATC
* * *
7449285 TATCTTCTTCTGTGATAGCGTCGACCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTT
1 TATCTCCTTCTGTGATAGAGTC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTT
*
7449350 TCCTCTTTAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG-TGTATGTTGATC
65 TCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGTATGTTGATC
* * *
7449408 TATCGCCTTCTGTGATAGAGTCATGCAAAAGGTTGAATAAGTTCTTCTCACTATGAACTTCTTTT
1 TATCTCCTTCTGTGATAGAGTCA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTT
*
7449473 TCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGTATGTTGATC
65 TCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGTATGTTGATC
* * *
7449532 TATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAATAAGTTCTTATCATTATGAACTTCTTCT
1 TATCTCCTTCTGTGATAGAGTCA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTT
* *
7449597 TCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGTATGCTGATC
65 TCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGTATGTTGATC
* *
7449656 TATCTCCTTCTGTGATAGAGTCTAGCAATAGGTTGAACAAGTTATTCTCATTATGAACTTCTTTT
1 TATCTCCTTCTGTGATAGAGTC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTT
**
7449721 TCCTCTTCAGATAAGTTCTTCTCATTACAAACTTTCTCTGGAAAAGTTGTATGTTGATC
65 TCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGTATGTTGATC
* *
7449780 TATCTCCTTCTGTGATAGAGTCTAGCAATAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1 TATCTCCTTCTGTGATAGAGTC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTT
7449845 TCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
65 TCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
7449886 GAATGTTGAT
Statistics
Matches: 557, Mismatches: 39, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
122 3 0.01
123 148 0.27
124 349 0.63
125 3 0.01
126 52 0.09
127 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (123 bp):
TATCTCCTTCTGTGATAGAGTCAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTT
CCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGTATGTTGATC
Found at i:7451129 original size:18 final size:18
Alignment explanation
Indices: 7451106--7451143 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7451096 TTTATAAAAG
7451106 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
*
7451124 AATAAATTGAATTTTGAA
1 AATAAATTGAATTTCGAA
7451142 AA
1 AA
7451144 GATAAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AATAAATTGAATTTCGAA
Found at i:7454442 original size:28 final size:28
Alignment explanation
Indices: 7454402--7454464 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
7454392 AACCGGTGTA
*
7454402 GATTGAATCGAACTAGACAATGATTTTC
1 GATTGAATCGAACTAGACAATAATTTTC
7454430 GATTGAATCGAACTAGACAATAATTTTC
1 GATTGAATCGAACTAGACAATAATTTTC
7454458 GATTGAA
1 GATTGAA
7454465 CCGATTAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (28 bp):
GATTGAATCGAACTAGACAATAATTTTC
Found at i:7454475 original size:9 final size:9
Alignment explanation
Indices: 7454457--7454486 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
7454447 CAATAATTTT
*
7454457 CGATTGAAC
1 CGATTAAAC
7454466 CGATTAAAC
1 CGATTAAAC
7454475 CGATTAAAC
1 CGATTAAAC
7454484 CGA
1 CGA
7454487 CCGATCGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (9 bp):
CGATTAAAC
Found at i:7455252 original size:23 final size:23
Alignment explanation
Indices: 7455226--7455275 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
7455216 TTTCCATGTT
* **
7455226 TGTTTATTTATTGTTTGTGAACA
1 TGTTTATTTAATGTTCATGAACA
7455249 TGTTTATTTAATGTTCATGAACA
1 TGTTTATTTAATGTTCATGAACA
7455272 TGTT
1 TGTT
7455276 CGTTTAGCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.54
Consensus pattern (23 bp):
TGTTTATTTAATGTTCATGAACA
Found at i:7455281 original size:23 final size:23
Alignment explanation
Indices: 7455243--7455312 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
7455233 TTATTGTTTG
**
7455243 TGAACATGTTTATTTAATGTTCA
1 TGAACATGTTCGTTTAATGTTCA
** *
7455266 TGAACATGTTCGTTTAGCGTTAA
1 TGAACATGTTCGTTTAATGTTCA
**
7455289 TGAATGTGTTCGTTTAATGTTCA
1 TGAACATGTTCGTTTAATGTTCA
7455312 T
1 T
7455313 TTATCATTCG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.46
Consensus pattern (23 bp):
TGAACATGTTCGTTTAATGTTCA
Found at i:7456504 original size:161 final size:161
Alignment explanation
Indices: 7456222--7456568 Score: 500
Period size: 161 Copynumber: 2.2 Consensus size: 161
7456212 TTAACATTTG
* * * * * *
7456222 TCTAACTAGCATAATTGACACTTTTCTGCAAATGCACAGTTATGCCATTATTCTTTTACTCAACG
1 TCTAACTGGCATAATTGACACATTTCTCCAAATGCAAAGCTAGGCCATTATTCTTTTACTCAACG
7456287 GTACTTAACTGCTCATCTAACTGGCATAATTGACACCTTTATGCCAATTGCACAGCTAGGCCATT
66 GTACTTAACTGCTCATCTAACTGGCATAATTGACACCTTTATGCCAATTGCACAGCTAGGCCATT
*
7456352 TTTCTTTTACTCAACGATACTTAATTGTTCA
131 TTTCTTTTACTCAACGATACTTAACTGTTCA
* * *
7456383 TCTAACTGGCATAATTGACACATTTCATCCAATTGCAAAGCTAGGCCATTTTTCTTTTACTCAAT
1 TCTAACTGGCATAATTGACACATTTC-TCCAAATGCAAAGCTAGGCCATTATTCTTTTACTCAAC
* * * *
7456448 GGTATTTAA-TCGTTCATCTAATTGGCATAATTGACA-CTTTCTGCCAATTGCACAGCTAGGCCA
65 GGTACTTAACT-GCTCATCTAACTGGCATAATTGACACCTTTATGCCAATTGCACAGCTAGGCCA
* *
7456511 TTTTTCTTTTACTCAGCGGTACTTAACTGTTCA
129 TTTTTCTTTTACTCAACGATACTTAACTGTTCA
* *
7456544 TCTAACTGGCATAAATAACACATTT
1 TCTAACTGGCATAATTGACACATTT
7456569 TTTTCATATA
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
161 104 0.63
162 62 0.37
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (161 bp):
TCTAACTGGCATAATTGACACATTTCTCCAAATGCAAAGCTAGGCCATTATTCTTTTACTCAACG
GTACTTAACTGCTCATCTAACTGGCATAATTGACACCTTTATGCCAATTGCACAGCTAGGCCATT
TTTCTTTTACTCAACGATACTTAACTGTTCA
Found at i:7456543 original size:80 final size:81
Alignment explanation
Indices: 7456222--7456568 Score: 486
Period size: 81 Copynumber: 4.3 Consensus size: 81
7456212 TTAACATTTG
* * * * * *
7456222 TCTAACTAGCATAATTGACACTTTTCTG-CAAATGCACAGTTATGCCATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
*
7456286 GGTACTTAACTGCTCA
66 GGTACTTAACTGTTCA
* *
7456302 TCTAACTGGCATAATTGACACCTTTATGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
* *
7456367 GATACTTAATTGTTCA
66 GGTACTTAACTGTTCA
*
7456383 TCTAACTGGCATAATTGACACATTTCAT-CCAATTGCAAAGCTAGGCCATTTTTCTTTTACTCAA
1 TCTAACTGGCATAATTGACACATTTC-TGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAA
* *
7456447 TGGTATTTAA-TCGTTCA
65 CGGTACTTAACT-GTTCA
* *
7456464 TCTAATTGGCATAATTGACAC-TTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAGC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
7456528 GGTACTTAACTGTTCA
66 GGTACTTAACTGTTCA
* *
7456544 TCTAACTGGCATAAATAACACATTT
1 TCTAACTGGCATAATTGACACATTT
7456569 TTTTCATATA
Statistics
Matches: 237, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.00
80 95 0.40
81 140 0.59
82 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (81 bp):
TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
GGTACTTAACTGTTCA
Found at i:7456651 original size:68 final size:68
Alignment explanation
Indices: 7456540--7457000 Score: 618
Period size: 68 Copynumber: 6.8 Consensus size: 68
7456530 TACTTAACTG
* * * * * * * *
7456540 TTCATCTAACTGGCATAAATAACACATTTTTTTCATATACACAGTTAGGCCTCAAAGGCACTCAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
7456605 TCT
66 TCT
* * * *
7456608 TTCATCTAATTGGCATAAATGACACATTTATGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
*
7456673 TTT
66 TCT
* * *
7456676 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCGCAATTAGGCCTCAAATACACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
7456741 TCT
66 TCT
* * * * *
7456744 TTCATCTAACTAGCATAATTAACACCTTTCTGTCATAT-AATCAATTATGCCTCAAAGACACTTA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCA-CAGTTAGGCCTCAAAGACACTTA
*
7456808 GCCT
65 GTCT
* * *
7456812 TTCATCTAACTGGAATAATTGACACATTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
*
7456877 CCT
66 TCT
* * * *
7456880 TTCATCAAACTGGCATAAATGACACCTTTTTGCCATATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
7456945 TCT
66 TCT
* *
7456948 TTCATCTAACTGACATAATTGACACCTTTCTGCCATATGCACAGTTAGGCCTC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTC
7457001 TTAATCTTTT
Statistics
Matches: 348, Mismatches: 43, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
68 347 1.00
69 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
TCT
Found at i:7457444 original size:58 final size:56
Alignment explanation
Indices: 7457367--7457510 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 56
7457357 CCATATATTT
* *
7457367 CCCAA-ACGGAAATTCATACACTTAGTATGAATTTCTTATCCTTTAGCACACAAGGTG
1 CCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAT--GTTAGCACACAAAGTG
* *
7457424 CCCAATACAGAAATTCATACACTT--T-T---TATC--ATGTTAGCACACAAAGTG
1 CCCAATACGGAAATTCATACACTTAGTATGAATTTCTTATGTTAGCACACAAAGTG
*
7457472 CCCTATACGGAAATTCATACACTTAGTATGAATTTCTTA
1 CCCAATACGGAAATTCATACACTTAGTATGAATTTCTTA
7457511 ACATTTTGCA
Statistics
Matches: 71, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
48 36 0.51
50 3 0.04
51 1 0.01
52 3 0.04
54 3 0.04
55 1 0.01
56 2 0.03
57 5 0.07
58 17 0.24
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (56 bp):
CCCAATACGGAAATTCATACACTTAGTATGAATTTCTTATGTTAGCACACAAAGTG
Found at i:7458096 original size:21 final size:21
Alignment explanation
Indices: 7458052--7458096 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7458042 ATTCGATGTT
*
7458052 TCTTGGTATCGATACCCCTCA
1 TCTTGGTATCGATACCACTCA
* *
7458073 TCTTGGTATCGATACTACTTA
1 TCTTGGTATCGATACCACTCA
7458094 TCT
1 TCT
7458097 AATTTATCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (21 bp):
TCTTGGTATCGATACCACTCA
Found at i:7459516 original size:2 final size:2
Alignment explanation
Indices: 7459511--7459542 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7459501 TAGGCATAAC
7459511 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7459543 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7461877 original size:80 final size:81
Alignment explanation
Indices: 7461736--7462083 Score: 499
Period size: 80 Copynumber: 4.3 Consensus size: 81
7461726 TTAACGTTTG
* * * *
7461736 TCTAACTGGCATAATTGACACATTTCTG-CAAATGCATAGTTAGGCCATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
7461800 -AGTACTTAATCGTTCA
66 GA-TACTTAATCGTTCA
7461816 TCTAACT-GCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
* *
7461880 GGTACTTAACCGTTCA
66 GATACTTAATCGTTCA
* *
7461896 TCTAACT-GCATAATTGACACATTTCTGCCAATTACACAGCTAGGCCATTTTTCTTTTACTCAAT
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
*
7461960 GATACTTAATAGTTCA
66 GATACTTAATCGTTCA
* * * *
7461976 TCTAACTGGCATAATTGACACCTTTTTGCCAATTGCATAGCTAGGCCATTTTTCTTTTACTCAGC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
7462041 GATACTTAA-CTGTTCA
66 GATACTTAATC-GTTCA
* * *
7462057 TCTAACTAGCATAAATAACACATTTCT
1 TCTAACTGGCATAATTGACACATTTCT
7462084 ATCATATACA
Statistics
Matches: 241, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
79 20 0.08
80 134 0.56
81 87 0.36
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTTTCTTTTACTCAAC
GATACTTAATCGTTCA
Found at i:7462049 original size:161 final size:160
Alignment explanation
Indices: 7461736--7462103 Score: 515
Period size: 161 Copynumber: 2.3 Consensus size: 160
7461726 TTAACGTTTG
* * * *
7461736 TCTAACTGGCATAATTGACACATTTCTGCAAATGCATAGTTAGGCCATTATTCTTTTACTCAACA
1 TCTAACTAGCATAATTGACACATTTCTGCAAATACACAGCTAGGCCATTATTCTTTTACTCAACA
*
7461801 GTACTTAATCGTTCATCTAACTGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTT
66 GTACTTAATAGTTCATCTAACTGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTT
*
7461866 TTCTTTTACTCAACGGTACTTAACCGTTCA
131 TTCTTTTACTCAACGATACTTAACCGTTCA
* *
7461896 TCTAACT-GCATAATTGACACATTTCTGCCAATTACACAGCTAGGCCATTTTTCTTTTACTCAA-
1 TCTAACTAGCATAATTGACACATTTCTG-CAAATACACAGCTAGGCCATTATTCTTTTACTCAAC
* * * *
7461959 TGATACTTAATAGTTCATCTAACTGGCATAATTGACACCTTTTTGCCAATTGCATAGCTAGGCCA
65 AG-TACTTAATAGTTCATCTAACT-GCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCA
* *
7462024 TTTTTCTTTTACTCAGCGATACTTAACTGTTCA
128 TTTTTCTTTTACTCAACGATACTTAACCGTTCA
* * * * *
7462057 TCTAACTAGCATAAATAACACATTTCTATCATATACACAGTTAGGCC
1 TCTAACTAGCATAATTGACACATTTCT-GCAAATACACAGCTAGGCC
7462104 TCAAAGGCCC
Statistics
Matches: 184, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
159 21 0.11
160 57 0.31
161 74 0.40
162 32 0.17
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (160 bp):
TCTAACTAGCATAATTGACACATTTCTGCAAATACACAGCTAGGCCATTATTCTTTTACTCAACA
GTACTTAATAGTTCATCTAACTGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTT
TTCTTTTACTCAACGATACTTAACCGTTCA
Found at i:7462164 original size:68 final size:68
Alignment explanation
Indices: 7462053--7462512 Score: 589
Period size: 68 Copynumber: 6.8 Consensus size: 68
7462043 TACTTAACTG
* * * * * * * *
7462053 TTCATCTAACTAGCATAAATAACACATTTCTATCATATACACAGTTAGGCCTCAAAGGCCCTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
7462118 TCT
66 TCT
* *
7462121 TTCATCTAACTGGCATAAATGACACATTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
7462186 TC-
66 TCT
* * ** * * *
7462188 TTCATCTAACTGGCATACTTGACACCTTTTTGTCATATGCGTAATTAGACCTCAAATACACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
7462253 TCT
66 TCT
* * * * *
7462256 TTCATCTAACTGGCATAATTGCCACCTTTATGTCATATGCACAATTAGGTCTCAAAGACAGTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
*
7462321 CCT
66 TCT
* * * * *
7462324 TTCATGTAACTGGCATAATTGACACCTTTCTATCATATGCATAGTTAGGCCTCAAAGGCACCTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
*
7462389 CCT
66 TCT
* * * * *
7462392 TTCATCTAACTGGCATAAATGACACCTTTATGCCATATGCACAGTTAGGCTTCAAAGACACTTAA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
7462457 TCT
66 TCT
* *
7462460 TTCATCTAACTGGCATAATTGACACATTTCTATCATATGCACAGTTAGGCCTC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTC
7462513 TTGATCTTTT
Statistics
Matches: 339, Mismatches: 52, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
67 58 0.17
68 281 0.83
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
TCT
Found at i:7463579 original size:21 final size:20
Alignment explanation
Indices: 7463553--7463605 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
7463543 CGATGTTTCT
*
7463553 TGGTATCGATACCCCTCATCC
1 TGGTATCGATACACCTCAT-C
* *
7463574 TGGTATCAATATTACCTCATC
1 TGGTATCGATA-CACCTCATC
7463595 -GGTATCGATAC
1 TGGTATCGATAC
7463606 TGATTAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 9 0.35
21 11 0.42
22 6 0.23
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (20 bp):
TGGTATCGATACACCTCATC
Found at i:7464277 original size:20 final size:20
Alignment explanation
Indices: 7464252--7464292 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
7464242 CTAAAAGACC
7464252 AAAATGCCTTTTAATAAACT
1 AAAATGCCTTTTAATAAACT
*
7464272 AAAATGGCTTTTAATAAACT
1 AAAATGCCTTTTAATAAACT
7464292 A
1 A
7464293 TCTTTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
AAAATGCCTTTTAATAAACT
Found at i:7468067 original size:164 final size:164
Alignment explanation
Indices: 7467796--7468125 Score: 660
Period size: 164 Copynumber: 2.0 Consensus size: 164
7467786 GGGTGACTGC
7467796 TGTATAGGGTGTTGAGCAACAAACTGTTGAAGGCTTGCTGCATTCACTGGGACTGGGAAAGTATG
1 TGTATAGGGTGTTGAGCAACAAACTGTTGAAGGCTTGCTGCATTCACTGGGACTGGGAAAGTATG
7467861 CAATTATTTTCAAGGCAGAAGAAGTAAGTAATCTAGAGCCTTAGTTTCTGAGTAAGGATAATTTC
66 CAATTATTTTCAAGGCAGAAGAAGTAAGTAATCTAGAGCCTTAGTTTCTGAGTAAGGATAATTTC
7467926 TTTTCTTTTTTGAAAGATAAAAGGTGTTCGGAGA
131 TTTTCTTTTTTGAAAGATAAAAGGTGTTCGGAGA
7467960 TGTATAGGGTGTTGAGCAACAAACTGTTGAAGGCTTGCTGCATTCACTGGGACTGGGAAAGTATG
1 TGTATAGGGTGTTGAGCAACAAACTGTTGAAGGCTTGCTGCATTCACTGGGACTGGGAAAGTATG
7468025 CAATTATTTTCAAGGCAGAAGAAGTAAGTAATCTAGAGCCTTAGTTTCTGAGTAAGGATAATTTC
66 CAATTATTTTCAAGGCAGAAGAAGTAAGTAATCTAGAGCCTTAGTTTCTGAGTAAGGATAATTTC
7468090 TTTTCTTTTTTGAAAGATAAAAGGTGTTCGGAGA
131 TTTTCTTTTTTGAAAGATAAAAGGTGTTCGGAGA
7468124 TG
1 TG
7468126 CTTTGGAAGA
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 166 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (164 bp):
TGTATAGGGTGTTGAGCAACAAACTGTTGAAGGCTTGCTGCATTCACTGGGACTGGGAAAGTATG
CAATTATTTTCAAGGCAGAAGAAGTAAGTAATCTAGAGCCTTAGTTTCTGAGTAAGGATAATTTC
TTTTCTTTTTTGAAAGATAAAAGGTGTTCGGAGA
Found at i:7469902 original size:21 final size:23
Alignment explanation
Indices: 7469860--7469903 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
7469850 GGAAAAGTAA
**
7469860 AAAAATTAGTTCAATTGGATAAT
1 AAAAATTAGTTCAATTCAATAAT
7469883 AAAAATTAG-T-AATTCAATAAT
1 AAAAATTAGTTCAATTCAATAAT
7469904 CTATGCTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 1 0.05
23 9 0.47
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (23 bp):
AAAAATTAGTTCAATTCAATAAT
Found at i:7471012 original size:20 final size:20
Alignment explanation
Indices: 7470987--7471055 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
7470977 CAACATTAAT
*
7470987 CAACCACAAATCAACAAATG
1 CAACCACAAATCAACCAATG
7471007 CAACCACAAATCAACCAATG
1 CAACCACAAATCAACCAATG
* *
7471027 CAATCAAAAATCAACCAATG
1 CAACCACAAATCAACCAATG
*
7471047 CAATCACAA
1 CAACCACAA
7471056 CGCAAATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.54, C:0.30, G:0.04, T:0.12
Consensus pattern (20 bp):
CAACCACAAATCAACCAATG
Found at i:7471017 original size:12 final size:11
Alignment explanation
Indices: 7470984--7471023 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
7470974 TAGCAACATT
7470984 AATCAACCACA
1 AATCAACCACA
7470995 AATC-A--ACA
1 AATCAACCACA
7471003 AATGCAACCACA
1 AAT-CAACCACA
7471015 AATCAACCA
1 AATCAACCA
7471024 ATGCAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 6 0.24
9 1 0.04
10 2 0.08
11 10 0.40
12 6 0.24
ACGTcount: A:0.55, C:0.33, G:0.03, T:0.10
Consensus pattern (11 bp):
AATCAACCACA
Found at i:7474033 original size:2 final size:2
Alignment explanation
Indices: 7473987--7474014 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7473977 ACATACACAC
7473987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7474015 TAACTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7475671 original size:25 final size:25
Alignment explanation
Indices: 7475643--7475690 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
7475633 GACTCGCCTT
7475643 AGCTTGCTAGCTCTTCTCGGACGAG
1 AGCTTGCTAGCTCTTCTCGGACGAG
7475668 AGCTTGCTAGCTCTTCTCGGACG
1 AGCTTGCTAGCTCTTCTCGGACG
7475691 CCTAGCTCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (25 bp):
AGCTTGCTAGCTCTTCTCGGACGAG
Found at i:7484733 original size:2 final size:2
Alignment explanation
Indices: 7484726--7484761 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7484716 TATCACCAAC
7484726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7484762 CCGCTTCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7490916 original size:31 final size:31
Alignment explanation
Indices: 7490869--7490931 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
7490859 AATTACCATT
7490869 AAACCAAAACACCTAACCCTTATCATCTTCC
1 AAACCAAAACACCTAACCCTTATCATCTTCC
* * *
7490900 AAACCAAGACATCTAACCCTTTTCATCTTCC
1 AAACCAAAACACCTAACCCTTATCATCTTCC
7490931 A
1 A
7490932 TAAGTCAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.25
Consensus pattern (31 bp):
AAACCAAAACACCTAACCCTTATCATCTTCC
Found at i:7493615 original size:20 final size:21
Alignment explanation
Indices: 7493592--7493630 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7493582 CATGACCAAG
7493592 AAAA-TCA-ACTTCTGACAGCC
1 AAAACTCACACTT-TGACAGCC
7493612 AAAACTCACACTTTGACAG
1 AAAACTCACACTTTGACAG
7493631 TTTGGCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (21 bp):
AAAACTCACACTTTGACAGCC
Found at i:7501762 original size:2 final size:2
Alignment explanation
Indices: 7501757--7501812 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
7501747 ATGATGTGTG
7501757 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7501799 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
7501813 AATAATATCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7520617 original size:22 final size:23
Alignment explanation
Indices: 7520578--7520620 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7520568 TTGTTCAACT
7520578 TAAAATAAAAATGAATTAATTAA
1 TAAAATAAAAATGAATTAATTAA
*
7520601 TAAAATAAAATTG-ATTAATT
1 TAAAATAAAAATGAATTAATT
7520621 TCAAATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (23 bp):
TAAAATAAAAATGAATTAATTAA
Found at i:7520786 original size:17 final size:18
Alignment explanation
Indices: 7520766--7520804 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
7520756 AAATACAATA
7520766 TATAACACC-AAACAAAG
1 TATAACACCAAAACAAAG
*
7520783 TATAACACCAAAACAATG
1 TATAACACCAAAACAAAG
7520801 TATA
1 TATA
7520805 TCCATGAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (18 bp):
TATAACACCAAAACAAAG
Found at i:7522456 original size:14 final size:13
Alignment explanation
Indices: 7522437--7522482 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
7522427 AATGTAAACA
7522437 AAATAATTAATAAT
1 AAATAA-TAATAAT
7522451 AAATAATAATAAAT
1 AAATAATAAT-AAT
7522465 AAAT-ATAATAAT
1 AAATAATAATAAT
7522477 -AATAAT
1 AAATAAT
7522483 TTTGTAGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.10
12 5 0.17
13 9 0.30
14 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:7522457 original size:10 final size:10
Alignment explanation
Indices: 7522438--7522481 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
7522428 ATGTAAACAA
*
7522438 AATAATTAAT
1 AATAAATAAT
7522448 AATAAATAAT
1 AATAAATAAT
7522458 AATAAAT-A-
1 AATAAATAAT
7522466 AATATAATAAT
1 AATA-AATAAT
7522477 AATAA
1 AATAA
7522482 TTTTGTAGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 18 0.60
11 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AATAAATAAT
Found at i:7522610 original size:10 final size:9
Alignment explanation
Indices: 7522591--7522623 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7522581 TGTCTGATTC
7522591 TTTTTTCTT
1 TTTTTTCTT
*
7522600 TTTTTTC-C
1 TTTTTTCTT
7522608 TTTTTTCTT
1 TTTTTTCTT
7522617 TTTTTTC
1 TTTTTTC
7522624 CTTGGAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:7522612 original size:17 final size:17
Alignment explanation
Indices: 7522590--7522626 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7522580 TTGTCTGATT
7522590 CTTTTTTCTTTTTTTTC
1 CTTTTTTCTTTTTTTTC
7522607 CTTTTTTCTTTTTTTTC
1 CTTTTTTCTTTTTTTTC
7522624 CTT
1 CTT
7522627 GGAATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
CTTTTTTCTTTTTTTTC
Found at i:7522815 original size:48 final size:48
Alignment explanation
Indices: 7522739--7522847 Score: 164
Period size: 48 Copynumber: 2.3 Consensus size: 48
7522729 GTCGAGGATG
* * *
7522739 ACACGATTCCTACGCGATAAGGACGAGAGTCTATCTTTAGGGGTGATA
1 ACACGGTTCCTACACGATAAGGACGAGAGTCCATCTTTAGGGGTGATA
* *
7522787 ACACGGTTCCTATACGATAAGGATGAGAGTCCATCTTTAGGGGTGATA
1 ACACGGTTCCTACACGATAAGGACGAGAGTCCATCTTTAGGGGTGATA
*
7522835 ACATGGTTCCTAC
1 ACACGGTTCCTAC
7522848 GTGATGACGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
ACACGGTTCCTACACGATAAGGACGAGAGTCCATCTTTAGGGGTGATA
Found at i:7523068 original size:131 final size:131
Alignment explanation
Indices: 7522817--7523089 Score: 321
Period size: 131 Copynumber: 2.1 Consensus size: 131
7522807 GGATGAGAGT
* * * *
7522817 CCATCTTTAGGGGTGATAACATGGTTCCTACGTGATGACGACGGCTGGTTATCTAGGGGTGACAC
1 CCATCTTTAGGGATGATAACACGGTTCCTACATGATGACGACGGCTGGTTATCTAGGGGTAACAC
* * * * * * * *
7522882 ACCTCCTACGTGATAAGGAGGTCTAGTTGATGGACAATACGGTTCATACGTGATGAGGACGATAG
66 ACCTCCTACATGATAAGGAGATCTAGTCGAGGGACAACACGATTCATACGCGATGAGGACGACAG
7522947 G
131 G
* * *
7522948 TCATCTTTAGGGATGATAACACGGTTCCTACATGATGAGGACGGCTTGTTATCTAGGGGTAACAC
1 CCATCTTTAGGGATGATAACACGGTTCCTACATGATGACGACGGCTGGTTATCTAGGGGTAACAC
** * * * * ** * *
7523013 GGCTCCTACATGATGAGGAGATTTGGTCGGGGGATGACATGATTCCTACGCGATGAGGACGACAG
66 ACCTCCTACATGATAAGGAGATCTAGTCGAGGGACAACACGATTCATACGCGATGAGGACGACAG
7523078 G
131 G
7523079 CCATCTTTAGG
1 CCATCTTTAGG
7523090 TATAATGGTT
Statistics
Matches: 116, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
131 116 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (131 bp):
CCATCTTTAGGGATGATAACACGGTTCCTACATGATGACGACGGCTGGTTATCTAGGGGTAACAC
ACCTCCTACATGATAAGGAGATCTAGTCGAGGGACAACACGATTCATACGCGATGAGGACGACAG
G
Done.